data_1YFG # _entry.id 1YFG # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1YFG pdb_00001yfg 10.2210/pdb1yfg/pdb RCSB TRNA12 ? ? WWPDB D_1000177389 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 1997-09-03 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 5 'Structure model' 1 4 2024-04-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Non-polymer description' 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' Advisory 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Database references' 7 4 'Structure model' 'Derived calculations' 8 5 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_validate_polymer_linkage 5 4 'Structure model' struct_conn 6 5 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 5 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 6 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 7 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 9 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 10 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 11 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 12 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1YFG _pdbx_database_status.recvd_initial_deposition_date 1997-05-08 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Basavappa, R.' 1 'Sigler, P.B.' 2 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'The 3 A crystal structure of yeast initiator tRNA: functional implications in initiator/elongator discrimination.' 'EMBO J.' 10 3105 3111 1991 EMJODG UK 0261-4189 0897 ? 1915284 ? 1 'Crystal Structure of a Eukaryotic Initiator tRNA' Nature 278 188 190 1979 NATUAS UK 0028-0836 0006 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Basavappa, R.' 1 ? primary 'Sigler, P.B.' 2 ? 1 'Schevitz, R.W.' 3 ? 1 'Podjarny, A.D.' 4 ? 1 'Krishnamachari, N.' 5 ? 1 'Hughes, J.J.' 6 ? 1 'Sigler, P.B.' 7 ? 1 'Sussman, J.L.' 8 ? # _entity.id 1 _entity.type polymer _entity.src_method nat _entity.pdbx_description 'YEAST INITIATOR TRNA' _entity.formula_weight 24713.969 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;AGCGCCGU(1MG)(2MG)CGCAG(H2U)GGAAGCGC(M2G)CAGGGCUCAU(T6A)ACCCUGAU(7MG)(H2U)(5MC) (5MC)UCGGAUCG(1MA)AACCG(RIA)GCGGCGCUACCA ; _entity_poly.pdbx_seq_one_letter_code_can AGCGCCGUGGCGCAGUGGAAGCGCGCAGGGCUCAUAACCCUGAUGUCCUCGGAUCGAAACCGAGCGGCGCUACCA _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 G n 1 3 C n 1 4 G n 1 5 C n 1 6 C n 1 7 G n 1 8 U n 1 9 1MG n 1 10 2MG n 1 11 C n 1 12 G n 1 13 C n 1 14 A n 1 15 G n 1 16 H2U n 1 17 G n 1 18 G n 1 19 A n 1 20 A n 1 21 G n 1 22 C n 1 23 G n 1 24 C n 1 25 M2G n 1 26 C n 1 27 A n 1 28 G n 1 29 G n 1 30 G n 1 31 C n 1 32 U n 1 33 C n 1 34 A n 1 35 U n 1 36 T6A n 1 37 A n 1 38 C n 1 39 C n 1 40 C n 1 41 U n 1 42 G n 1 43 A n 1 44 U n 1 45 7MG n 1 46 H2U n 1 47 5MC n 1 48 5MC n 1 49 U n 1 50 C n 1 51 G n 1 52 G n 1 53 A n 1 54 U n 1 55 C n 1 56 G n 1 57 1MA n 1 58 A n 1 59 A n 1 60 C n 1 61 C n 1 62 G n 1 63 RIA n 1 64 G n 1 65 C n 1 66 G n 1 67 G n 1 68 C n 1 69 G n 1 70 C n 1 71 U n 1 72 A n 1 73 C n 1 74 C n 1 75 A n # _entity_src_nat.entity_id 1 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _entity_src_nat.pdbx_beg_seq_num ? _entity_src_nat.pdbx_end_seq_num ? _entity_src_nat.common_name ;baker's yeast ; _entity_src_nat.pdbx_organism_scientific 'Saccharomyces cerevisiae' _entity_src_nat.pdbx_ncbi_taxonomy_id 4932 _entity_src_nat.genus Saccharomyces _entity_src_nat.species ? _entity_src_nat.strain ? _entity_src_nat.tissue ? _entity_src_nat.tissue_fraction ? _entity_src_nat.pdbx_secretion ? _entity_src_nat.pdbx_fragment ? _entity_src_nat.pdbx_variant ? _entity_src_nat.pdbx_cell_line ? _entity_src_nat.pdbx_atcc ? _entity_src_nat.pdbx_cellular_location ? _entity_src_nat.pdbx_organ ? _entity_src_nat.pdbx_organelle ? _entity_src_nat.pdbx_cell ? _entity_src_nat.pdbx_plasmid_name ? _entity_src_nat.pdbx_plasmid_details ? _entity_src_nat.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 1MA 'RNA linking' n "6-HYDRO-1-METHYLADENOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O7 P' 361.248 1MG 'RNA linking' n "1N-METHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O8 P' 377.247 2MG 'RNA linking' n "2N-METHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O8 P' 377.247 5MC 'RNA linking' n "5-METHYLCYTIDINE-5'-MONOPHOSPHATE" ? 'C10 H16 N3 O8 P' 337.223 7MG 'RNA linking' n "7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H18 N5 O8 P' 379.263 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 H2U 'RNA linking' n "5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE" ? 'C9 H15 N2 O9 P' 326.197 M2G 'RNA linking' n "N2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C12 H18 N5 O8 P' 391.274 RIA 'RNA linking' n "2'-O-[(5'-PHOSPHO)RIBOSYL]ADENOSINE-5'-MONOPHOSPHATE" ? 'C15 H23 N5 O14 P2' 559.316 T6A 'RNA linking' n "N-[N-(9-B-D-RIBOFURANOSYLPURIN-6-YL)CARBAMOYL]THREONINE-5'-MONOPHOSPHATE" "N-(NEBULARIN-6-YLCARBAMOYL)-L-THREONINE-5'-MONOPHOSPHATE" 'C15 H21 N6 O11 P' 492.335 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 A 1 1 1 A A A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 C 6 6 6 C C A . n A 1 7 G 7 7 7 G G A . n A 1 8 U 8 8 8 U U A . n A 1 9 1MG 9 9 9 1MG 1MG A . n A 1 10 2MG 10 10 10 2MG 2MG A . n A 1 11 C 11 11 11 C C A . n A 1 12 G 12 12 12 G G A . n A 1 13 C 13 13 13 C C A . n A 1 14 A 14 14 14 A A A . n A 1 15 G 15 15 15 G G A . n A 1 16 H2U 16 16 16 H2U H2U A . n A 1 17 G 17 18 18 G G A . n A 1 18 G 18 19 19 G G A . n A 1 19 A 19 20 20 A A A . n A 1 20 A 20 21 21 A A A . n A 1 21 G 21 22 22 G G A . n A 1 22 C 22 23 23 C C A . n A 1 23 G 23 24 24 G G A . n A 1 24 C 24 25 25 C C A . n A 1 25 M2G 25 26 26 M2G M2G A . n A 1 26 C 26 27 27 C C A . n A 1 27 A 27 28 28 A A A . n A 1 28 G 28 29 29 G G A . n A 1 29 G 29 30 30 G G A . n A 1 30 G 30 31 31 G G A . n A 1 31 C 31 32 32 C C A . n A 1 32 U 32 33 33 U U A . n A 1 33 C 33 34 34 C C A . n A 1 34 A 34 35 35 A A A . n A 1 35 U 35 36 36 U U A . n A 1 36 T6A 36 37 37 T6A T6A A . n A 1 37 A 37 38 38 A A A . n A 1 38 C 38 39 39 C C A . n A 1 39 C 39 40 40 C C A . n A 1 40 C 40 41 41 C C A . n A 1 41 U 41 42 42 U U A . n A 1 42 G 42 43 43 G G A . n A 1 43 A 43 44 44 A A A . n A 1 44 U 44 45 45 U U A . n A 1 45 7MG 45 46 46 7MG 7MG A . n A 1 46 H2U 46 47 47 H2U H2U A . n A 1 47 5MC 47 48 48 5MC 5MC A . n A 1 48 5MC 48 49 49 5MC 5MC A . n A 1 49 U 49 50 50 U U A . n A 1 50 C 50 51 51 C C A . n A 1 51 G 51 52 52 G G A . n A 1 52 G 52 53 53 G G A . n A 1 53 A 53 54 54 A A A . n A 1 54 U 54 55 55 U U A . n A 1 55 C 55 56 56 C C A . n A 1 56 G 56 57 57 G G A . n A 1 57 1MA 57 58 58 1MA 1MA A . n A 1 58 A 58 59 59 A A A . n A 1 59 A 59 60 60 A A A . n A 1 60 C 60 61 61 C C A . n A 1 61 C 61 62 62 C C A . n A 1 62 G 62 63 63 G G A . n A 1 63 RIA 63 64 64 RIA RIA A . n A 1 64 G 64 65 65 G G A . n A 1 65 C 65 66 66 C C A . n A 1 66 G 66 67 67 G G A . n A 1 67 G 67 68 68 G G A . n A 1 68 C 68 69 69 C C A . n A 1 69 G 69 70 70 G G A . n A 1 70 C 70 71 71 C C A . n A 1 71 U 71 72 72 U U A . n A 1 72 A 72 73 73 A A A . n A 1 73 C 73 74 74 C C A . n A 1 74 C 74 75 75 C C A . n A 1 75 A 75 76 76 A A A . n # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal PHARE 'model building' . ? 1 DENMOD 'model building' . ? 2 NUCLIN/PROFFT refinement . ? 3 MODIFIED refinement 'BY Z.OTWINOWSKI' ? 4 DENZO 'data reduction' . ? 5 SCALEPACK 'data scaling' . ? 6 MLPHARE phasing . ? 7 DM phasing . ? 8 NUCLIN refinement . ? 9 PROFFT refinement '(MODIFIED BY Z.OTWINOWSKI)' ? 10 # _cell.entry_id 1YFG _cell.length_a 113.720 _cell.length_b 113.720 _cell.length_c 136.541 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YFG _symmetry.space_group_name_H-M 'P 64 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 # _exptl.entry_id 1YFG _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 8 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 5.16 _exptl_crystal.density_percent_sol 82.0000 _exptl_crystal.description ;THE DATA QUALITY STATISTICS REPORTED ARE FOR THE COMBINED DATA SET FROM CHESS AND THE PHOTON FACTORY. THE MODEL SUBMITTED HERE IS BASED ON THE 4A STRUCTURE REPORTED IN REFERENCE 2 AND REFINED AGAINST NEWLY COLLECTED DATA TO 3A. ; # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 301.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.00 _exptl_crystal_grow.pdbx_details 'pH 6.00, VAPOR DIFFUSION, temperature 301.00K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 WATER ? ? ? 1 2 1 'NH4 SULFATE' ? ? ? 1 3 1 'MG SULFATE' ? ? ? 1 4 1 SPERMINE ? ? ? 1 5 1 'NA CACODYLATE' ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 278.00 ? 1 2 278.00 ? 1 3 278.00 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 FILM ? 1988-01-01 ? 2 'STORAGE PHOSPHORS' KODAK 1988-01-01 ? 3 'IMAGE PLATE' Y.AMEMIYA 1988-01-01 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M ? ? x-ray 2 2 M ? ? x-ray 3 3 M ? ? x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 . 1.0 2 . 1.0 3 . 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list 1 SYNCHROTRON SSRL SSRL ? ? ? 2 SYNCHROTRON CHESS CHESS ? ? ? 3 SYNCHROTRON 'PHOTON FACTORY' 'Photon Factory' ? ? ? # _reflns.entry_id 1YFG _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 20.000 _reflns.d_resolution_high 3.000 _reflns.number_obs 10688 _reflns.number_all ? _reflns.percent_possible_obs 95.000 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.0800000 _reflns.pdbx_netI_over_sigmaI 15.7000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1,2,3 # _reflns_shell.d_res_high 3.000 _reflns_shell.d_res_low 3.140 _reflns_shell.percent_possible_all 98.80 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.4950000 _reflns_shell.meanI_over_sigI_obs 2.240 _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1,2,3 # _refine.entry_id 1YFG _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 10.000 _refine.ls_d_res_high 3.000 _refine.ls_percent_reflns_obs 81.700 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all 0.2150000 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean 33.00 _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method NONE _refine.details ;INDIVIDUAL ISOTROPIC TEMP. FACTOR RMS: 0.638. INDIVIDUAL ISOTROPIC TEMP. FACTOR SIGMA: 1.000. THE MODEL INITIALLY WAS REFINED AGAINST THE SSRL DATA USING NUCLIN/NUCLSQ AND THEN NUCLIN/PROFFT HYBRID. FACTORY DATA AS THEY BECAME AVAILABLE. REFINEMENT PERFORMED WITH REFINEMENT CONTINUED AGAINST CHESS AND CHESS+PHOTON NUCLIN/PROFFT AND THEN X-PLOR. FINAL MODEL OBTAINED WITH NUCLIN/ PROFFT. ; _refine.pdbx_starting_model '4 A STRUCTURE REPORTED IN REFERENCE 2' _refine.pdbx_method_to_determine_struct MIR _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1,2,3 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1639 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1639 _refine_hist.d_res_high 3.000 _refine_hist.d_res_low 10.000 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function p_bond_d 0.012 0.025 ? ? 'X-RAY DIFFRACTION' ? p_angle_d 0.025 0.035 ? ? 'X-RAY DIFFRACTION' ? p_angle_deg ? ? ? ? 'X-RAY DIFFRACTION' ? p_planar_d ? ? ? ? 'X-RAY DIFFRACTION' ? p_hb_or_metal_coord ? ? ? ? 'X-RAY DIFFRACTION' ? p_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? p_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? p_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? p_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? p_plane_restr 0.002 0.010 ? ? 'X-RAY DIFFRACTION' ? p_chiral_restr 0.247 0.300 ? ? 'X-RAY DIFFRACTION' ? p_singtor_nbd 0.115 0.200 ? ? 'X-RAY DIFFRACTION' ? p_multtor_nbd 0.168 0.638 ? ? 'X-RAY DIFFRACTION' ? p_xhyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? p_xyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? p_planar_tor ? ? ? ? 'X-RAY DIFFRACTION' ? p_staggered_tor ? ? ? ? 'X-RAY DIFFRACTION' ? p_orthonormal_tor ? ? ? ? 'X-RAY DIFFRACTION' ? p_transverse_tor ? ? ? ? 'X-RAY DIFFRACTION' ? p_special_tor ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1YFG _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1YFG _struct.title 'YEAST INITIATOR TRNA' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1YFG _struct_keywords.pdbx_keywords T-RNA _struct_keywords.text 'AMINO ACID TRANSPORT, TRANSFER RIBONUCLEIC ACID, T-RNA' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1YFG _struct_ref.pdbx_db_accession 1YFG _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1YFG _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 75 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1YFG _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 76 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 76 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A U 8 "O3'" ? ? ? 1_555 A 1MG 9 P ? ? A U 8 A 1MG 9 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale2 covale both ? A 1MG 9 "O3'" ? ? ? 1_555 A 2MG 10 P ? ? A 1MG 9 A 2MG 10 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale3 covale both ? A 2MG 10 "O3'" ? ? ? 1_555 A C 11 P ? ? A 2MG 10 A C 11 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale4 covale both ? A G 15 "O3'" ? ? ? 1_555 A H2U 16 P ? ? A G 15 A H2U 16 1_555 ? ? ? ? ? ? ? 1.598 ? ? covale5 covale both ? A H2U 16 "O3'" ? ? ? 1_555 A G 17 P ? ? A H2U 16 A G 18 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale6 covale both ? A C 24 "O3'" ? ? ? 1_555 A M2G 25 P ? ? A C 25 A M2G 26 1_555 ? ? ? ? ? ? ? 1.635 ? ? covale7 covale both ? A M2G 25 "O3'" ? ? ? 1_555 A C 26 P ? ? A M2G 26 A C 27 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale8 covale both ? A U 35 "O3'" ? ? ? 1_555 A T6A 36 P ? ? A U 36 A T6A 37 1_555 ? ? ? ? ? ? ? 1.581 ? ? covale9 covale both ? A T6A 36 "O3'" ? ? ? 1_555 A A 37 P ? ? A T6A 37 A A 38 1_555 ? ? ? ? ? ? ? 1.556 ? ? covale10 covale both ? A U 44 "O3'" ? ? ? 1_555 A 7MG 45 P ? ? A U 45 A 7MG 46 1_555 ? ? ? ? ? ? ? 1.632 ? ? covale11 covale both ? A 7MG 45 "O3'" ? ? ? 1_555 A H2U 46 P ? ? A 7MG 46 A H2U 47 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale12 covale both ? A H2U 46 "O3'" ? ? ? 1_555 A 5MC 47 P ? ? A H2U 47 A 5MC 48 1_555 ? ? ? ? ? ? ? 1.631 ? ? covale13 covale both ? A 5MC 47 "O3'" ? ? ? 1_555 A 5MC 48 P ? ? A 5MC 48 A 5MC 49 1_555 ? ? ? ? ? ? ? 1.628 ? ? covale14 covale both ? A 5MC 48 "O3'" ? ? ? 1_555 A U 49 P ? ? A 5MC 49 A U 50 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale15 covale both ? A G 56 "O3'" ? ? ? 1_555 A 1MA 57 P ? ? A G 57 A 1MA 58 1_555 ? ? ? ? ? ? ? 1.655 ? ? covale16 covale both ? A 1MA 57 "O3'" ? ? ? 1_555 A A 58 P ? ? A 1MA 58 A A 59 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale17 covale both ? A G 62 "O3'" ? ? ? 1_555 A RIA 63 P ? ? A G 63 A RIA 64 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale18 covale one ? A RIA 63 O3A ? ? ? 1_555 A G 64 P ? ? A RIA 64 A G 65 1_555 ? ? ? ? ? ? ? 1.586 ? ? hydrog1 hydrog ? ? A A 1 N1 ? ? ? 1_555 A U 71 N3 ? ? A A 1 A U 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A A 1 N6 ? ? ? 1_555 A U 71 O4 ? ? A A 1 A U 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 70 N3 ? ? A G 2 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 70 O2 ? ? A G 2 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 70 N4 ? ? A G 2 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 69 N1 ? ? A C 3 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 69 O6 ? ? A C 3 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 69 N2 ? ? A C 3 A G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 68 N3 ? ? A G 4 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 68 O2 ? ? A G 4 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 68 N4 ? ? A G 4 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 A G 67 N1 ? ? A C 5 A G 68 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 A G 67 O6 ? ? A C 5 A G 68 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 A G 67 N2 ? ? A C 5 A G 68 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 66 N1 ? ? A C 6 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 66 O6 ? ? A C 6 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 66 N2 ? ? A C 6 A G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 65 N3 ? ? A G 7 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 65 O2 ? ? A G 7 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 65 N4 ? ? A G 7 A C 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 8 N3 ? ? ? 1_555 A A 14 N7 ? ? A U 8 A A 14 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog22 hydrog ? ? A U 8 O2 ? ? ? 1_555 A A 14 N6 ? ? A U 8 A A 14 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog23 hydrog ? ? A 1MG 9 N7 ? ? ? 1_555 A C 22 N4 ? ? A 1MG 9 A C 23 1_555 ? ? ? ? ? ? '1MG-C PAIR' ? ? ? hydrog24 hydrog ? ? A 2MG 10 N1 ? ? ? 1_555 A C 24 N3 ? ? A 2MG 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A 2MG 10 N2 ? ? ? 1_555 A C 24 O2 ? ? A 2MG 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A 2MG 10 O6 ? ? ? 1_555 A C 24 N4 ? ? A 2MG 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 23 N1 ? ? A C 11 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 23 O6 ? ? A C 11 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 23 N2 ? ? A C 11 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 22 N3 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 22 O2 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 22 N4 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 13 N3 ? ? ? 1_555 A G 21 N1 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 13 N4 ? ? ? 1_555 A G 21 O6 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 13 O2 ? ? ? 1_555 A G 21 N2 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 15 N1 ? ? ? 1_555 A 5MC 47 O2 ? ? A G 15 A 5MC 48 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog37 hydrog ? ? A G 15 N2 ? ? ? 1_555 A 5MC 47 N3 ? ? A G 15 A 5MC 48 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog38 hydrog ? ? A G 17 N1 ? ? ? 1_555 A U 54 O2 ? ? A G 18 A U 55 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog39 hydrog ? ? A G 18 N1 ? ? ? 1_555 A C 55 N3 ? ? A G 19 A C 56 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 18 N2 ? ? ? 1_555 A C 55 O2 ? ? A G 19 A C 56 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 18 O6 ? ? ? 1_555 A C 55 N4 ? ? A G 19 A C 56 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A A 19 N1 ? ? ? 1_555 A G 56 N2 ? ? A A 20 A G 57 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog43 hydrog ? ? A A 19 N6 ? ? ? 1_555 A G 56 N3 ? ? A A 20 A G 57 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog44 hydrog ? ? A G 21 N7 ? ? ? 1_555 A 7MG 45 N1 ? ? A G 22 A 7MG 46 1_555 ? ? ? ? ? ? TYPE_7_PAIR ? ? ? hydrog45 hydrog ? ? A G 21 O6 ? ? ? 1_555 A 7MG 45 N2 ? ? A G 22 A 7MG 46 1_555 ? ? ? ? ? ? TYPE_7_PAIR ? ? ? hydrog46 hydrog ? ? A M2G 25 N1 ? ? ? 1_555 A A 43 N1 ? ? A M2G 26 A A 44 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog47 hydrog ? ? A M2G 25 O6 ? ? ? 1_555 A A 43 N6 ? ? A M2G 26 A A 44 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog48 hydrog ? ? A C 26 N3 ? ? ? 1_555 A G 42 N1 ? ? A C 27 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A C 26 N4 ? ? ? 1_555 A G 42 O6 ? ? A C 27 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A C 26 O2 ? ? ? 1_555 A G 42 N2 ? ? A C 27 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A A 27 N1 ? ? ? 1_555 A U 41 N3 ? ? A A 28 A U 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A A 27 N6 ? ? ? 1_555 A U 41 O4 ? ? A A 28 A U 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A G 28 N1 ? ? ? 1_555 A C 40 N3 ? ? A G 29 A C 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? A G 28 N2 ? ? ? 1_555 A C 40 O2 ? ? A G 29 A C 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? A G 28 O6 ? ? ? 1_555 A C 40 N4 ? ? A G 29 A C 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? A G 29 N1 ? ? ? 1_555 A C 39 N3 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? A G 29 N2 ? ? ? 1_555 A C 39 O2 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? A G 29 O6 ? ? ? 1_555 A C 39 N4 ? ? A G 30 A C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? A G 30 N1 ? ? ? 1_555 A C 38 N3 ? ? A G 31 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? A G 30 N2 ? ? ? 1_555 A C 38 O2 ? ? A G 31 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? A G 30 O6 ? ? ? 1_555 A C 38 N4 ? ? A G 31 A C 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? A C 31 N4 ? ? ? 1_555 A A 37 N1 ? ? A C 32 A A 38 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog63 hydrog ? ? A 5MC 48 N3 ? ? ? 1_555 A G 64 N1 ? ? A 5MC 49 A G 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? A 5MC 48 N4 ? ? ? 1_555 A G 64 O6 ? ? A 5MC 49 A G 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? A 5MC 48 O2 ? ? ? 1_555 A G 64 N2 ? ? A 5MC 49 A G 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? A U 49 N3 ? ? ? 1_555 A RIA 63 N1 ? ? A U 50 A RIA 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? A U 49 O4 ? ? ? 1_555 A RIA 63 N6 ? ? A U 50 A RIA 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? A C 50 N3 ? ? ? 1_555 A G 62 N1 ? ? A C 51 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? A C 50 N4 ? ? ? 1_555 A G 62 O6 ? ? A C 51 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? A C 50 O2 ? ? ? 1_555 A G 62 N2 ? ? A C 51 A G 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? A G 51 N1 ? ? ? 1_555 A C 61 N3 ? ? A G 52 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? A G 51 N2 ? ? ? 1_555 A C 61 O2 ? ? A G 52 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? A G 51 O6 ? ? ? 1_555 A C 61 N4 ? ? A G 52 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? A G 52 N1 ? ? ? 1_555 A C 60 N3 ? ? A G 53 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? A G 52 N2 ? ? ? 1_555 A C 60 O2 ? ? A G 53 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? A G 52 O6 ? ? ? 1_555 A C 60 N4 ? ? A G 53 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? A A 53 N1 ? ? ? 1_555 A 1MA 57 N6 ? ? A A 54 A 1MA 58 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog78 hydrog ? ? A A 53 N6 ? ? ? 1_555 A 1MA 57 N7 ? ? A A 54 A 1MA 58 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C2'" A C 13 ? ? "C1'" A C 13 ? ? 1.475 1.526 -0.051 0.008 N 2 1 "O3'" A G 18 ? ? P A G 19 ? ? 1.693 1.607 0.086 0.012 Y 3 1 N9 A A 21 ? ? C4 A A 21 ? ? 1.412 1.374 0.038 0.006 N 4 1 "C5'" A C 41 ? ? "C4'" A C 41 ? ? 1.581 1.509 0.072 0.012 N 5 1 "O3'" A C 41 ? ? P A U 42 ? ? 1.504 1.607 -0.103 0.012 Y 6 1 "O3'" A A 54 ? ? P A U 55 ? ? 1.683 1.607 0.076 0.012 Y 7 1 P A G 65 ? ? "O5'" A G 65 ? ? 1.525 1.593 -0.068 0.010 N 8 1 "C2'" A U 72 ? ? "C1'" A U 72 ? ? 1.474 1.526 -0.052 0.008 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 OP1 A A 1 ? ? P A A 1 ? ? OP2 A A 1 ? ? 109.91 119.60 -9.69 1.50 N 2 1 "O5'" A A 1 ? ? "C5'" A A 1 ? ? "C4'" A A 1 ? ? 103.75 109.40 -5.65 0.80 N 3 1 "O5'" A G 2 ? ? P A G 2 ? ? OP2 A G 2 ? ? 119.71 110.70 9.01 1.20 N 4 1 "O5'" A G 2 ? ? "C5'" A G 2 ? ? "C4'" A G 2 ? ? 104.17 109.40 -5.23 0.80 N 5 1 P A G 2 ? ? "O5'" A G 2 ? ? "C5'" A G 2 ? ? 108.92 120.90 -11.98 1.60 N 6 1 C5 A G 2 ? ? C6 A G 2 ? ? N1 A G 2 ? ? 115.06 111.50 3.56 0.50 N 7 1 "O5'" A C 3 ? ? "C5'" A C 3 ? ? "C4'" A C 3 ? ? 102.31 109.40 -7.09 0.80 N 8 1 "C3'" A C 3 ? ? "O3'" A C 3 ? ? P A G 4 ? ? 128.08 119.70 8.38 1.20 Y 9 1 "C3'" A C 5 ? ? "O3'" A C 5 ? ? P A C 6 ? ? 109.55 119.70 -10.15 1.20 Y 10 1 P A C 6 ? ? "O5'" A C 6 ? ? "C5'" A C 6 ? ? 108.26 120.90 -12.64 1.60 N 11 1 "O4'" A C 6 ? ? "C1'" A C 6 ? ? N1 A C 6 ? ? 113.72 108.50 5.22 0.70 N 12 1 N3 A C 6 ? ? C4 A C 6 ? ? C5 A C 6 ? ? 119.31 121.90 -2.59 0.40 N 13 1 C5 A G 7 ? ? C6 A G 7 ? ? N1 A G 7 ? ? 114.57 111.50 3.07 0.50 N 14 1 C2 A U 8 ? ? N3 A U 8 ? ? C4 A U 8 ? ? 121.99 127.00 -5.01 0.60 N 15 1 N3 A U 8 ? ? C4 A U 8 ? ? C5 A U 8 ? ? 118.85 114.60 4.25 0.60 N 16 1 "C3'" A C 11 ? ? "O3'" A C 11 ? ? P A G 12 ? ? 108.25 119.70 -11.45 1.20 Y 17 1 "O5'" A G 12 ? ? P A G 12 ? ? OP1 A G 12 ? ? 120.58 110.70 9.88 1.20 N 18 1 "C3'" A G 12 ? ? "O3'" A G 12 ? ? P A C 13 ? ? 112.34 119.70 -7.36 1.20 Y 19 1 "O4'" A A 14 ? ? "C1'" A A 14 ? ? N9 A A 14 ? ? 102.32 108.20 -5.88 0.80 N 20 1 C5 A A 14 ? ? C6 A A 14 ? ? N1 A A 14 ? ? 114.15 117.70 -3.55 0.50 N 21 1 N1 A A 14 ? ? C6 A A 14 ? ? N6 A A 14 ? ? 122.30 118.60 3.70 0.60 N 22 1 "O5'" A G 15 ? ? P A G 15 ? ? OP2 A G 15 ? ? 121.54 110.70 10.84 1.20 N 23 1 P A G 15 ? ? "O5'" A G 15 ? ? "C5'" A G 15 ? ? 101.70 120.90 -19.20 1.60 N 24 1 N9 A G 15 ? ? "C1'" A G 15 ? ? "C2'" A G 15 ? ? 102.39 112.00 -9.61 1.10 N 25 1 "O3'" A G 15 ? ? P A H2U 16 ? ? OP1 A H2U 16 ? ? 121.10 110.50 10.60 1.10 Y 26 1 "C3'" A H2U 16 ? ? "O3'" A H2U 16 ? ? P A G 18 ? ? 108.08 119.70 -11.62 1.20 Y 27 1 P A G 18 ? ? "O5'" A G 18 ? ? "C5'" A G 18 ? ? 102.82 120.90 -18.08 1.60 N 28 1 "O4'" A G 18 ? ? "C1'" A G 18 ? ? N9 A G 18 ? ? 119.29 108.50 10.79 0.70 N 29 1 "C3'" A G 18 ? ? "O3'" A G 18 ? ? P A G 19 ? ? 107.95 119.70 -11.75 1.20 Y 30 1 OP1 A G 19 ? ? P A G 19 ? ? OP2 A G 19 ? ? 108.09 119.60 -11.51 1.50 N 31 1 "O5'" A G 19 ? ? P A G 19 ? ? OP2 A G 19 ? ? 127.39 110.70 16.69 1.20 N 32 1 "O4'" A G 19 ? ? "C1'" A G 19 ? ? N9 A G 19 ? ? 94.70 108.20 -13.50 0.80 N 33 1 "O4'" A A 21 ? ? "C1'" A A 21 ? ? N9 A A 21 ? ? 118.13 108.50 9.63 0.70 N 34 1 "O5'" A G 22 ? ? P A G 22 ? ? OP2 A G 22 ? ? 119.26 110.70 8.56 1.20 N 35 1 P A G 22 ? ? "O5'" A G 22 ? ? "C5'" A G 22 ? ? 110.48 120.90 -10.42 1.60 N 36 1 "O4'" A G 22 ? ? "C1'" A G 22 ? ? N9 A G 22 ? ? 113.11 108.50 4.61 0.70 N 37 1 C5 A G 22 ? ? C6 A G 22 ? ? N1 A G 22 ? ? 114.80 111.50 3.30 0.50 N 38 1 "O5'" A C 23 ? ? P A C 23 ? ? OP2 A C 23 ? ? 120.04 110.70 9.34 1.20 N 39 1 P A C 23 ? ? "O5'" A C 23 ? ? "C5'" A C 23 ? ? 109.48 120.90 -11.42 1.60 N 40 1 N9 A G 24 ? ? "C1'" A G 24 ? ? "C2'" A G 24 ? ? 103.36 112.00 -8.64 1.10 N 41 1 "C3'" A G 24 ? ? "O3'" A G 24 ? ? P A C 25 ? ? 131.70 119.70 12.00 1.20 Y 42 1 "O4'" A C 25 ? ? "C1'" A C 25 ? ? N1 A C 25 ? ? 112.95 108.50 4.45 0.70 N 43 1 N3 A C 25 ? ? C4 A C 25 ? ? C5 A C 25 ? ? 119.47 121.90 -2.43 0.40 N 44 1 "O5'" A C 27 ? ? P A C 27 ? ? OP2 A C 27 ? ? 117.96 110.70 7.26 1.20 N 45 1 C6 A A 28 ? ? N1 A A 28 ? ? C2 A A 28 ? ? 122.23 118.60 3.63 0.60 N 46 1 N1 A A 28 ? ? C2 A A 28 ? ? N3 A A 28 ? ? 126.27 129.30 -3.03 0.50 N 47 1 "C3'" A G 29 ? ? "O3'" A G 29 ? ? P A G 30 ? ? 140.92 119.70 21.22 1.20 Y 48 1 N9 A G 31 ? ? "C1'" A G 31 ? ? "C2'" A G 31 ? ? 104.62 112.00 -7.38 1.10 N 49 1 "O3'" A G 31 ? ? P A C 32 ? ? "O5'" A C 32 ? ? 119.53 104.00 15.53 1.90 Y 50 1 OP1 A C 32 ? ? P A C 32 ? ? OP2 A C 32 ? ? 109.02 119.60 -10.58 1.50 N 51 1 "O5'" A C 32 ? ? "C5'" A C 32 ? ? "C4'" A C 32 ? ? 103.82 109.40 -5.58 0.80 N 52 1 P A C 32 ? ? "O5'" A C 32 ? ? "C5'" A C 32 ? ? 139.94 120.90 19.04 1.60 N 53 1 N1 A C 32 ? ? C2 A C 32 ? ? O2 A C 32 ? ? 124.26 118.90 5.36 0.60 N 54 1 "C3'" A C 32 ? ? "O3'" A C 32 ? ? P A U 33 ? ? 130.93 119.70 11.23 1.20 Y 55 1 OP1 A U 33 ? ? P A U 33 ? ? OP2 A U 33 ? ? 109.99 119.60 -9.61 1.50 N 56 1 C2 A U 33 ? ? N3 A U 33 ? ? C4 A U 33 ? ? 121.94 127.00 -5.06 0.60 N 57 1 N3 A U 33 ? ? C4 A U 33 ? ? C5 A U 33 ? ? 119.34 114.60 4.74 0.60 N 58 1 N1 A U 33 ? ? C2 A U 33 ? ? O2 A U 33 ? ? 118.36 122.80 -4.44 0.70 N 59 1 "C3'" A C 34 ? ? "O3'" A C 34 ? ? P A A 35 ? ? 139.20 119.70 19.50 1.20 Y 60 1 "C3'" A A 35 ? ? "O3'" A A 35 ? ? P A U 36 ? ? 134.25 119.70 14.55 1.20 Y 61 1 C2 A U 36 ? ? N3 A U 36 ? ? C4 A U 36 ? ? 121.81 127.00 -5.19 0.60 N 62 1 N3 A U 36 ? ? C4 A U 36 ? ? C5 A U 36 ? ? 119.63 114.60 5.03 0.60 N 63 1 "C3'" A U 36 ? ? "O3'" A U 36 ? ? P A T6A 37 ? ? 131.70 119.70 12.00 1.20 Y 64 1 "C3'" A T6A 37 ? ? "O3'" A T6A 37 ? ? P A A 38 ? ? 150.98 119.70 31.28 1.20 Y 65 1 C6 A A 38 ? ? N1 A A 38 ? ? C2 A A 38 ? ? 125.85 118.60 7.25 0.60 N 66 1 N1 A A 38 ? ? C2 A A 38 ? ? N3 A A 38 ? ? 124.26 129.30 -5.04 0.50 N 67 1 C5 A A 38 ? ? C6 A A 38 ? ? N1 A A 38 ? ? 113.17 117.70 -4.53 0.50 N 68 1 "C3'" A A 38 ? ? "O3'" A A 38 ? ? P A C 39 ? ? 144.09 119.70 24.39 1.20 Y 69 1 OP1 A C 39 ? ? P A C 39 ? ? OP2 A C 39 ? ? 109.82 119.60 -9.78 1.50 N 70 1 P A C 39 ? ? "O5'" A C 39 ? ? "C5'" A C 39 ? ? 110.84 120.90 -10.06 1.60 N 71 1 "O4'" A C 39 ? ? "C1'" A C 39 ? ? N1 A C 39 ? ? 112.91 108.50 4.41 0.70 N 72 1 N3 A C 39 ? ? C4 A C 39 ? ? C5 A C 39 ? ? 119.47 121.90 -2.43 0.40 N 73 1 "C3'" A C 39 ? ? "O3'" A C 39 ? ? P A C 40 ? ? 133.92 119.70 14.22 1.20 Y 74 1 "O5'" A C 40 ? ? P A C 40 ? ? OP2 A C 40 ? ? 123.40 110.70 12.70 1.20 N 75 1 OP1 A U 42 ? ? P A U 42 ? ? OP2 A U 42 ? ? 110.18 119.60 -9.42 1.50 N 76 1 C2 A U 42 ? ? N3 A U 42 ? ? C4 A U 42 ? ? 122.74 127.00 -4.26 0.60 N 77 1 N3 A U 42 ? ? C4 A U 42 ? ? C5 A U 42 ? ? 119.35 114.60 4.75 0.60 N 78 1 C5 A G 43 ? ? C6 A G 43 ? ? N1 A G 43 ? ? 114.88 111.50 3.38 0.50 N 79 1 "O4'" A U 45 ? ? "C1'" A U 45 ? ? N1 A U 45 ? ? 116.53 108.50 8.03 0.70 N 80 1 N1 A U 45 ? ? C2 A U 45 ? ? N3 A U 45 ? ? 118.52 114.90 3.62 0.60 N 81 1 C2 A U 45 ? ? N3 A U 45 ? ? C4 A U 45 ? ? 122.13 127.00 -4.87 0.60 N 82 1 N3 A U 45 ? ? C4 A U 45 ? ? C5 A U 45 ? ? 119.19 114.60 4.59 0.60 N 83 1 "C3'" A H2U 47 ? ? "O3'" A H2U 47 ? ? P A 5MC 48 ? ? 103.45 119.70 -16.25 1.20 Y 84 1 "C3'" A 5MC 49 ? ? "O3'" A 5MC 49 ? ? P A U 50 ? ? 110.47 119.70 -9.23 1.20 Y 85 1 OP1 A U 50 ? ? P A U 50 ? ? OP2 A U 50 ? ? 109.57 119.60 -10.03 1.50 N 86 1 "O5'" A U 50 ? ? P A U 50 ? ? OP2 A U 50 ? ? 122.01 110.70 11.31 1.20 N 87 1 P A U 50 ? ? "O5'" A U 50 ? ? "C5'" A U 50 ? ? 109.20 120.90 -11.70 1.60 N 88 1 "C5'" A U 50 ? ? "C4'" A U 50 ? ? "C3'" A U 50 ? ? 105.63 115.20 -9.57 1.40 N 89 1 C2 A U 50 ? ? N3 A U 50 ? ? C4 A U 50 ? ? 121.97 127.00 -5.03 0.60 N 90 1 N3 A U 50 ? ? C4 A U 50 ? ? C5 A U 50 ? ? 119.83 114.60 5.23 0.60 N 91 1 C5 A U 50 ? ? C4 A U 50 ? ? O4 A U 50 ? ? 119.46 125.90 -6.44 0.60 N 92 1 "C3'" A U 50 ? ? "O3'" A U 50 ? ? P A C 51 ? ? 104.38 119.70 -15.32 1.20 Y 93 1 "O5'" A C 51 ? ? P A C 51 ? ? OP1 A C 51 ? ? 123.89 110.70 13.19 1.20 N 94 1 "O5'" A C 51 ? ? "C5'" A C 51 ? ? "C4'" A C 51 ? ? 104.24 109.40 -5.16 0.80 N 95 1 P A C 51 ? ? "O5'" A C 51 ? ? "C5'" A C 51 ? ? 111.06 120.90 -9.84 1.60 N 96 1 "C3'" A C 51 ? ? "O3'" A C 51 ? ? P A G 52 ? ? 109.63 119.70 -10.07 1.20 Y 97 1 "O3'" A C 51 ? ? P A G 52 ? ? "O5'" A G 52 ? ? 92.04 104.00 -11.96 1.90 Y 98 1 "O5'" A G 52 ? ? P A G 52 ? ? OP2 A G 52 ? ? 118.72 110.70 8.02 1.20 N 99 1 "O5'" A G 52 ? ? "C5'" A G 52 ? ? "C4'" A G 52 ? ? 103.96 109.40 -5.44 0.80 N 100 1 P A G 52 ? ? "O5'" A G 52 ? ? "C5'" A G 52 ? ? 105.83 120.90 -15.07 1.60 N 101 1 "O4'" A G 52 ? ? "C1'" A G 52 ? ? N9 A G 52 ? ? 101.68 108.20 -6.52 0.80 N 102 1 "C3'" A G 52 ? ? "O3'" A G 52 ? ? P A G 53 ? ? 110.68 119.70 -9.02 1.20 Y 103 1 "O5'" A G 53 ? ? "C5'" A G 53 ? ? "C4'" A G 53 ? ? 103.43 109.40 -5.97 0.80 N 104 1 P A G 53 ? ? "O5'" A G 53 ? ? "C5'" A G 53 ? ? 108.69 120.90 -12.21 1.60 N 105 1 C5 A A 54 ? ? C6 A A 54 ? ? N1 A A 54 ? ? 114.45 117.70 -3.25 0.50 N 106 1 "C3'" A A 54 ? ? "O3'" A A 54 ? ? P A U 55 ? ? 104.39 119.70 -15.31 1.20 Y 107 1 "O5'" A U 55 ? ? P A U 55 ? ? OP2 A U 55 ? ? 120.67 110.70 9.97 1.20 N 108 1 P A U 55 ? ? "O5'" A U 55 ? ? "C5'" A U 55 ? ? 103.92 120.90 -16.98 1.60 N 109 1 C2 A U 55 ? ? N3 A U 55 ? ? C4 A U 55 ? ? 122.26 127.00 -4.74 0.60 N 110 1 N3 A U 55 ? ? C4 A U 55 ? ? C5 A U 55 ? ? 119.76 114.60 5.16 0.60 N 111 1 "C3'" A U 55 ? ? "O3'" A U 55 ? ? P A C 56 ? ? 127.49 119.70 7.79 1.20 Y 112 1 OP1 A C 56 ? ? P A C 56 ? ? OP2 A C 56 ? ? 107.16 119.60 -12.44 1.50 N 113 1 P A C 56 ? ? "O5'" A C 56 ? ? "C5'" A C 56 ? ? 106.57 120.90 -14.33 1.60 N 114 1 "O5'" A G 57 ? ? P A G 57 ? ? OP2 A G 57 ? ? 119.65 110.70 8.95 1.20 N 115 1 "O5'" A G 57 ? ? "C5'" A G 57 ? ? "C4'" A G 57 ? ? 103.83 109.40 -5.57 0.80 N 116 1 P A G 57 ? ? "O5'" A G 57 ? ? "C5'" A G 57 ? ? 105.15 120.90 -15.75 1.60 N 117 1 "O3'" A 1MA 58 ? ? P A A 59 ? ? OP2 A A 59 ? ? 118.73 110.50 8.23 1.10 Y 118 1 OP1 A A 59 ? ? P A A 59 ? ? OP2 A A 59 ? ? 103.70 119.60 -15.90 1.50 N 119 1 OP1 A A 60 ? ? P A A 60 ? ? OP2 A A 60 ? ? 103.95 119.60 -15.65 1.50 N 120 1 "O5'" A A 60 ? ? P A A 60 ? ? OP2 A A 60 ? ? 119.57 110.70 8.87 1.20 N 121 1 P A A 60 ? ? "O5'" A A 60 ? ? "C5'" A A 60 ? ? 106.18 120.90 -14.72 1.60 N 122 1 N1 A A 60 ? ? C2 A A 60 ? ? N3 A A 60 ? ? 126.29 129.30 -3.01 0.50 N 123 1 "O5'" A C 62 ? ? P A C 62 ? ? OP1 A C 62 ? ? 121.04 110.70 10.34 1.20 N 124 1 "O3'" A C 62 ? ? P A G 63 ? ? OP2 A G 63 ? ? 122.25 110.50 11.75 1.10 Y 125 1 OP1 A G 63 ? ? P A G 63 ? ? OP2 A G 63 ? ? 110.46 119.60 -9.14 1.50 N 126 1 "O5'" A G 63 ? ? "C5'" A G 63 ? ? "C4'" A G 63 ? ? 104.44 109.40 -4.96 0.80 N 127 1 P A G 63 ? ? "O5'" A G 63 ? ? "C5'" A G 63 ? ? 99.60 120.90 -21.30 1.60 N 128 1 "O3'" A G 63 ? ? P A RIA 64 ? ? "O5'" A RIA 64 ? ? 76.39 104.00 -27.61 1.90 Y 129 1 OP1 A G 65 ? ? P A G 65 ? ? OP2 A G 65 ? ? 107.03 119.60 -12.57 1.50 N 130 1 "O5'" A G 65 ? ? P A G 65 ? ? OP1 A G 65 ? ? 118.03 110.70 7.33 1.20 N 131 1 "O5'" A G 65 ? ? P A G 65 ? ? OP2 A G 65 ? ? 118.34 110.70 7.64 1.20 N 132 1 "O5'" A G 65 ? ? "C5'" A G 65 ? ? "C4'" A G 65 ? ? 101.17 109.40 -8.23 0.80 N 133 1 P A C 66 ? ? "O5'" A C 66 ? ? "C5'" A C 66 ? ? 110.75 120.90 -10.15 1.60 N 134 1 N1 A C 66 ? ? "C1'" A C 66 ? ? "C2'" A C 66 ? ? 105.37 112.00 -6.63 1.10 N 135 1 "O4'" A C 66 ? ? "C1'" A C 66 ? ? N1 A C 66 ? ? 114.51 108.50 6.01 0.70 N 136 1 "C3'" A C 66 ? ? "O3'" A C 66 ? ? P A G 67 ? ? 127.40 119.70 7.70 1.20 Y 137 1 "O5'" A G 67 ? ? "C5'" A G 67 ? ? "C4'" A G 67 ? ? 102.83 109.40 -6.57 0.80 N 138 1 OP1 A G 68 ? ? P A G 68 ? ? OP2 A G 68 ? ? 107.47 119.60 -12.13 1.50 N 139 1 "O5'" A G 68 ? ? "C5'" A G 68 ? ? "C4'" A G 68 ? ? 104.16 109.40 -5.24 0.80 N 140 1 "O4'" A G 68 ? ? "C1'" A G 68 ? ? N9 A G 68 ? ? 114.24 108.50 5.74 0.70 N 141 1 OP1 A C 69 ? ? P A C 69 ? ? OP2 A C 69 ? ? 103.76 119.60 -15.84 1.50 N 142 1 "O5'" A C 69 ? ? P A C 69 ? ? OP2 A C 69 ? ? 120.73 110.70 10.03 1.20 N 143 1 "O5'" A C 69 ? ? "C5'" A C 69 ? ? "C4'" A C 69 ? ? 104.51 109.40 -4.89 0.80 N 144 1 "C3'" A C 69 ? ? "O3'" A C 69 ? ? P A G 70 ? ? 108.03 119.70 -11.67 1.20 Y 145 1 OP1 A G 70 ? ? P A G 70 ? ? OP2 A G 70 ? ? 109.89 119.60 -9.71 1.50 N 146 1 "O5'" A G 70 ? ? P A G 70 ? ? OP1 A G 70 ? ? 118.59 110.70 7.89 1.20 N 147 1 P A G 70 ? ? "O5'" A G 70 ? ? "C5'" A G 70 ? ? 108.60 120.90 -12.30 1.60 N 148 1 OP1 A C 71 ? ? P A C 71 ? ? OP2 A C 71 ? ? 109.78 119.60 -9.82 1.50 N 149 1 "O5'" A C 71 ? ? P A C 71 ? ? OP2 A C 71 ? ? 124.20 110.70 13.50 1.20 N 150 1 P A U 72 ? ? "O5'" A U 72 ? ? "C5'" A U 72 ? ? 107.38 120.90 -13.52 1.60 N 151 1 C2 A U 72 ? ? N3 A U 72 ? ? C4 A U 72 ? ? 121.72 127.00 -5.28 0.60 N 152 1 N3 A U 72 ? ? C4 A U 72 ? ? C5 A U 72 ? ? 119.42 114.60 4.82 0.60 N 153 1 "C3'" A U 72 ? ? "O3'" A U 72 ? ? P A A 73 ? ? 108.17 119.70 -11.53 1.20 Y 154 1 "O5'" A A 73 ? ? P A A 73 ? ? OP2 A A 73 ? ? 118.61 110.70 7.91 1.20 N 155 1 "O5'" A A 73 ? ? "C5'" A A 73 ? ? "C4'" A A 73 ? ? 103.27 109.40 -6.13 0.80 N 156 1 N1 A A 73 ? ? C2 A A 73 ? ? N3 A A 73 ? ? 125.33 129.30 -3.97 0.50 N 157 1 "O4'" A C 74 ? ? "C1'" A C 74 ? ? N1 A C 74 ? ? 115.17 108.50 6.67 0.70 N 158 1 "C3'" A C 74 ? ? "O3'" A C 74 ? ? P A C 75 ? ? 137.69 119.70 17.99 1.20 Y 159 1 "O5'" A C 75 ? ? "C5'" A C 75 ? ? "C4'" A C 75 ? ? 104.23 109.40 -5.17 0.80 N 160 1 N3 A C 75 ? ? C4 A C 75 ? ? C5 A C 75 ? ? 118.72 121.90 -3.18 0.40 N 161 1 P A A 76 ? ? "O5'" A A 76 ? ? "C5'" A A 76 ? ? 111.04 120.90 -9.86 1.60 N 162 1 "O4'" A A 76 ? ? "C1'" A A 76 ? ? N9 A A 76 ? ? 124.43 108.50 15.93 0.70 N 163 1 C5 A A 76 ? ? C6 A A 76 ? ? N1 A A 76 ? ? 114.18 117.70 -3.52 0.50 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A 1MG 9 A 1MG 9 ? G "1N-METHYLGUANOSINE-5'-MONOPHOSPHATE" 2 A 2MG 10 A 2MG 10 ? G "2N-METHYLGUANOSINE-5'-MONOPHOSPHATE" 3 A H2U 16 A H2U 16 ? U "5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE" 4 A M2G 25 A M2G 26 ? G "N2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE" 5 A T6A 36 A T6A 37 ? A ? 6 A 7MG 45 A 7MG 46 ? G ? 7 A H2U 46 A H2U 47 ? U "5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE" 8 A 5MC 47 A 5MC 48 ? C "5-METHYLCYTIDINE-5'-MONOPHOSPHATE" 9 A 5MC 48 A 5MC 49 ? C "5-METHYLCYTIDINE-5'-MONOPHOSPHATE" 10 A 1MA 57 A 1MA 58 ? A ? 11 A RIA 63 A RIA 64 ? A ? # _pdbx_database_remark.id 999 _pdbx_database_remark.text ;SEQUENCE MOST OF THE MODEL IS CLEARLY DEFINED IN THE ELECTRON DENSITY MAPS. HOWEVER, PLEASE BE AWARE THAT RESIDUES 29-41, COMPRISING MOST OF THE ANTICODON ARM, ARE HIGHLY DISORDERED.THE POSITIONS OF THESE RESIDUES ARE ONLY A BEST GUESS. IN PARTICULAR, THE ORIENTATION OF THE T6A MODIFICATION ON RESIDUE 37 IS VERY TENTATIVE. PLEASE USE CAUTION WHEN MAKING ANY SUPPOSITIONS BASED ON THE POSITIONS OF THESE RESIDUES. REFERENCE: IN ORDER TO ALIGN THE YEAST INITIATOR TRNA TO THE CANONICAL CLOVERLEAF NUMBERING SYSTEM, THERE IS NO RESIDUE NUMBERED "17". ; # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 1MA P P N N 1 1MA OP1 O N N 2 1MA OP2 O N N 3 1MA OP3 O N N 4 1MA "O5'" O N N 5 1MA "C5'" C N N 6 1MA "C4'" C N R 7 1MA "O4'" O N N 8 1MA "C3'" C N S 9 1MA "O3'" O N N 10 1MA "C2'" C N R 11 1MA "O2'" O N N 12 1MA "C1'" C N R 13 1MA N9 N Y N 14 1MA C8 C Y N 15 1MA N7 N Y N 16 1MA C5 C Y N 17 1MA C6 C N N 18 1MA N6 N N N 19 1MA N1 N N N 20 1MA CM1 C N N 21 1MA C2 C N N 22 1MA N3 N N N 23 1MA C4 C Y N 24 1MA HOP2 H N N 25 1MA HOP3 H N N 26 1MA "H5'" H N N 27 1MA "H5''" H N N 28 1MA "H4'" H N N 29 1MA "H3'" H N N 30 1MA "HO3'" H N N 31 1MA "H2'" H N N 32 1MA "HO2'" H N N 33 1MA "H1'" H N N 34 1MA H8 H N N 35 1MA HN61 H N N 36 1MA HM11 H N N 37 1MA HM12 H N N 38 1MA HM13 H N N 39 1MA H2 H N N 40 1MG P P N N 41 1MG OP1 O N N 42 1MG OP2 O N N 43 1MG OP3 O N N 44 1MG "O5'" O N N 45 1MG "C5'" C N N 46 1MG "C4'" C N R 47 1MG "O4'" O N N 48 1MG "C3'" C N S 49 1MG "O3'" O N N 50 1MG "C2'" C N R 51 1MG "O2'" O N N 52 1MG "C1'" C N R 53 1MG N9 N Y N 54 1MG C8 C Y N 55 1MG N7 N Y N 56 1MG C5 C Y N 57 1MG C6 C N N 58 1MG O6 O N N 59 1MG N1 N N N 60 1MG CM1 C N N 61 1MG C2 C N N 62 1MG N2 N N N 63 1MG N3 N N N 64 1MG C4 C Y N 65 1MG HOP2 H N N 66 1MG HOP3 H N N 67 1MG "H5'" H N N 68 1MG "H5''" H N N 69 1MG "H4'" H N N 70 1MG "H3'" H N N 71 1MG "HO3'" H N N 72 1MG "H2'" H N N 73 1MG "HO2'" H N N 74 1MG "H1'" H N N 75 1MG H8 H N N 76 1MG HM11 H N N 77 1MG HM12 H N N 78 1MG HM13 H N N 79 1MG HN21 H N N 80 1MG HN22 H N N 81 2MG P P N N 82 2MG OP1 O N N 83 2MG OP2 O N N 84 2MG OP3 O N N 85 2MG "O5'" O N N 86 2MG "C5'" C N N 87 2MG "C4'" C N R 88 2MG "O4'" O N N 89 2MG "C3'" C N S 90 2MG "O3'" O N N 91 2MG "C2'" C N R 92 2MG "O2'" O N N 93 2MG "C1'" C N R 94 2MG N9 N Y N 95 2MG C8 C Y N 96 2MG N7 N Y N 97 2MG C5 C Y N 98 2MG C6 C N N 99 2MG O6 O N N 100 2MG N1 N N N 101 2MG C2 C N N 102 2MG N2 N N N 103 2MG CM2 C N N 104 2MG N3 N N N 105 2MG C4 C Y N 106 2MG HOP2 H N N 107 2MG HOP3 H N N 108 2MG "H5'" H N N 109 2MG "H5''" H N N 110 2MG "H4'" H N N 111 2MG "H3'" H N N 112 2MG "HO3'" H N N 113 2MG "H2'" H N N 114 2MG "HO2'" H N N 115 2MG "H1'" H N N 116 2MG H8 H N N 117 2MG HN1 H N N 118 2MG HN2 H N N 119 2MG HM21 H N N 120 2MG HM22 H N N 121 2MG HM23 H N N 122 5MC P P N N 123 5MC OP1 O N N 124 5MC OP2 O N N 125 5MC OP3 O N N 126 5MC "O5'" O N N 127 5MC "C5'" C N N 128 5MC "C4'" C N R 129 5MC "O4'" O N N 130 5MC "C3'" C N S 131 5MC "O3'" O N N 132 5MC "C2'" C N R 133 5MC "O2'" O N N 134 5MC "C1'" C N R 135 5MC N1 N N N 136 5MC C2 C N N 137 5MC O2 O N N 138 5MC N3 N N N 139 5MC C4 C N N 140 5MC N4 N N N 141 5MC C5 C N N 142 5MC C6 C N N 143 5MC CM5 C N N 144 5MC HOP2 H N N 145 5MC HOP3 H N N 146 5MC "H5'" H N N 147 5MC "H5''" H N N 148 5MC "H4'" H N N 149 5MC "H3'" H N N 150 5MC "HO3'" H N N 151 5MC "H2'" H N N 152 5MC "HO2'" H N N 153 5MC "H1'" H N N 154 5MC HN41 H N N 155 5MC HN42 H N N 156 5MC H6 H N N 157 5MC HM51 H N N 158 5MC HM52 H N N 159 5MC HM53 H N N 160 7MG P P N N 161 7MG OP1 O N N 162 7MG OP2 O N N 163 7MG OP3 O N N 164 7MG "O5'" O N N 165 7MG "C5'" C N N 166 7MG "C4'" C N R 167 7MG "O4'" O N N 168 7MG "C3'" C N S 169 7MG "O3'" O N N 170 7MG "C2'" C N R 171 7MG "O2'" O N N 172 7MG "C1'" C N R 173 7MG N9 N N N 174 7MG C8 C N N 175 7MG N7 N N N 176 7MG C5 C N N 177 7MG C6 C N N 178 7MG O6 O N N 179 7MG N1 N N N 180 7MG C2 C N N 181 7MG N2 N N N 182 7MG N3 N N N 183 7MG C4 C N N 184 7MG CM7 C N N 185 7MG HOP2 H N N 186 7MG HOP3 H N N 187 7MG "H5'" H N N 188 7MG "H5''" H N N 189 7MG "H4'" H N N 190 7MG "H3'" H N N 191 7MG "HO3'" H N N 192 7MG "H2'" H N N 193 7MG "HO2'" H N N 194 7MG "H1'" H N N 195 7MG H81 H N N 196 7MG H82 H N N 197 7MG HN1 H N N 198 7MG HN21 H N N 199 7MG HN22 H N N 200 7MG HM71 H N N 201 7MG HM72 H N N 202 7MG HM73 H N N 203 A OP3 O N N 204 A P P N N 205 A OP1 O N N 206 A OP2 O N N 207 A "O5'" O N N 208 A "C5'" C N N 209 A "C4'" C N R 210 A "O4'" O N N 211 A "C3'" C N S 212 A "O3'" O N N 213 A "C2'" C N R 214 A "O2'" O N N 215 A "C1'" C N R 216 A N9 N Y N 217 A C8 C Y N 218 A N7 N Y N 219 A C5 C Y N 220 A C6 C Y N 221 A N6 N N N 222 A N1 N Y N 223 A C2 C Y N 224 A N3 N Y N 225 A C4 C Y N 226 A HOP3 H N N 227 A HOP2 H N N 228 A "H5'" H N N 229 A "H5''" H N N 230 A "H4'" H N N 231 A "H3'" H N N 232 A "HO3'" H N N 233 A "H2'" H N N 234 A "HO2'" H N N 235 A "H1'" H N N 236 A H8 H N N 237 A H61 H N N 238 A H62 H N N 239 A H2 H N N 240 C OP3 O N N 241 C P P N N 242 C OP1 O N N 243 C OP2 O N N 244 C "O5'" O N N 245 C "C5'" C N N 246 C "C4'" C N R 247 C "O4'" O N N 248 C "C3'" C N S 249 C "O3'" O N N 250 C "C2'" C N R 251 C "O2'" O N N 252 C "C1'" C N R 253 C N1 N N N 254 C C2 C N N 255 C O2 O N N 256 C N3 N N N 257 C C4 C N N 258 C N4 N N N 259 C C5 C N N 260 C C6 C N N 261 C HOP3 H N N 262 C HOP2 H N N 263 C "H5'" H N N 264 C "H5''" H N N 265 C "H4'" H N N 266 C "H3'" H N N 267 C "HO3'" H N N 268 C "H2'" H N N 269 C "HO2'" H N N 270 C "H1'" H N N 271 C H41 H N N 272 C H42 H N N 273 C H5 H N N 274 C H6 H N N 275 G OP3 O N N 276 G P P N N 277 G OP1 O N N 278 G OP2 O N N 279 G "O5'" O N N 280 G "C5'" C N N 281 G "C4'" C N R 282 G "O4'" O N N 283 G "C3'" C N S 284 G "O3'" O N N 285 G "C2'" C N R 286 G "O2'" O N N 287 G "C1'" C N R 288 G N9 N Y N 289 G C8 C Y N 290 G N7 N Y N 291 G C5 C Y N 292 G C6 C N N 293 G O6 O N N 294 G N1 N N N 295 G C2 C N N 296 G N2 N N N 297 G N3 N N N 298 G C4 C Y N 299 G HOP3 H N N 300 G HOP2 H N N 301 G "H5'" H N N 302 G "H5''" H N N 303 G "H4'" H N N 304 G "H3'" H N N 305 G "HO3'" H N N 306 G "H2'" H N N 307 G "HO2'" H N N 308 G "H1'" H N N 309 G H8 H N N 310 G H1 H N N 311 G H21 H N N 312 G H22 H N N 313 H2U P P N N 314 H2U OP1 O N N 315 H2U OP2 O N N 316 H2U OP3 O N N 317 H2U "O5'" O N N 318 H2U "C5'" C N N 319 H2U "C4'" C N R 320 H2U "O4'" O N N 321 H2U "C3'" C N S 322 H2U "O3'" O N N 323 H2U "C1'" C N R 324 H2U "C2'" C N R 325 H2U "O2'" O N N 326 H2U N1 N N N 327 H2U C2 C N N 328 H2U O2 O N N 329 H2U N3 N N N 330 H2U C4 C N N 331 H2U O4 O N N 332 H2U C5 C N N 333 H2U C6 C N N 334 H2U HOP2 H N N 335 H2U HOP3 H N N 336 H2U "H5'" H N N 337 H2U "H5''" H N N 338 H2U "H4'" H N N 339 H2U "H3'" H N N 340 H2U "HO3'" H N N 341 H2U "H1'" H N N 342 H2U "H2'" H N N 343 H2U "HO2'" H N N 344 H2U HN3 H N N 345 H2U H51 H N N 346 H2U H52 H N N 347 H2U H61 H N N 348 H2U H62 H N N 349 M2G P P N N 350 M2G OP1 O N N 351 M2G OP2 O N N 352 M2G OP3 O N N 353 M2G "O5'" O N N 354 M2G "C5'" C N N 355 M2G "C4'" C N R 356 M2G "O4'" O N N 357 M2G "C3'" C N S 358 M2G "O3'" O N N 359 M2G "C2'" C N R 360 M2G "O2'" O N N 361 M2G "C1'" C N R 362 M2G N9 N Y N 363 M2G C8 C Y N 364 M2G N7 N Y N 365 M2G C5 C Y N 366 M2G C6 C N N 367 M2G O6 O N N 368 M2G N1 N N N 369 M2G C2 C N N 370 M2G N2 N N N 371 M2G N3 N N N 372 M2G C4 C Y N 373 M2G CM1 C N N 374 M2G CM2 C N N 375 M2G HOP2 H N N 376 M2G HOP3 H N N 377 M2G "H5'" H N N 378 M2G "H5''" H N N 379 M2G "H4'" H N N 380 M2G "H3'" H N N 381 M2G "HO3'" H N N 382 M2G "H2'" H N N 383 M2G "HO2'" H N N 384 M2G "H1'" H N N 385 M2G H8 H N N 386 M2G HN1 H N N 387 M2G HM11 H N N 388 M2G HM12 H N N 389 M2G HM13 H N N 390 M2G HM21 H N N 391 M2G HM22 H N N 392 M2G HM23 H N N 393 RIA P P N N 394 RIA OP1 O N N 395 RIA OP2 O N N 396 RIA OP3 O N N 397 RIA O5A O N N 398 RIA C5A C N N 399 RIA C4A C N R 400 RIA "O4'" O N N 401 RIA C3A C N R 402 RIA O3A O N N 403 RIA C2A C N R 404 RIA O2A O N N 405 RIA C1A C N R 406 RIA N9 N Y N 407 RIA C8 C Y N 408 RIA N7 N Y N 409 RIA C5 C Y N 410 RIA C6 C Y N 411 RIA N6 N N N 412 RIA N1 N Y N 413 RIA C2 C Y N 414 RIA N3 N Y N 415 RIA C4 C Y N 416 RIA "C1'" C N S 417 RIA "O1'" O N N 418 RIA "C2'" C N R 419 RIA "O2'" O N N 420 RIA "C3'" C N S 421 RIA "O3'" O N N 422 RIA "C4'" C N R 423 RIA "C5'" C N N 424 RIA "O5'" O N N 425 RIA "P'" P N N 426 RIA O1X O N N 427 RIA O2X O N N 428 RIA O3X O N N 429 RIA HOP2 H N N 430 RIA HOP3 H N N 431 RIA "H5'" H N N 432 RIA "H5''" H N N 433 RIA H4A H N N 434 RIA H3A H N N 435 RIA HO3A H N N 436 RIA H2A H N N 437 RIA H1A H N N 438 RIA H8 H N N 439 RIA HN61 H N N 440 RIA HN62 H N N 441 RIA H2 H N N 442 RIA "H1'" H N N 443 RIA "H2'" H N N 444 RIA "HO2'" H N N 445 RIA "H3'" H N N 446 RIA "HO3'" H N N 447 RIA "H4'" H N N 448 RIA "H5'1" H N N 449 RIA "H5'2" H N N 450 RIA "HO'2" H N N 451 RIA "HO'3" H N N 452 T6A P P N N 453 T6A OP1 O N N 454 T6A OP2 O N N 455 T6A OP3 O N N 456 T6A "O5'" O N N 457 T6A "C5'" C N N 458 T6A "C4'" C N R 459 T6A "O4'" O N N 460 T6A "C3'" C N S 461 T6A "O3'" O N N 462 T6A "C2'" C N R 463 T6A "O2'" O N N 464 T6A "C1'" C N R 465 T6A N9 N Y N 466 T6A C8 C Y N 467 T6A N7 N Y N 468 T6A C5 C Y N 469 T6A C6 C Y N 470 T6A N6 N N N 471 T6A N1 N Y N 472 T6A C2 C Y N 473 T6A N3 N Y N 474 T6A C4 C Y N 475 T6A C10 C N N 476 T6A O10 O N N 477 T6A N11 N N N 478 T6A C12 C N S 479 T6A C13 C N N 480 T6A ODA O N N 481 T6A ODB O N N 482 T6A C14 C N R 483 T6A O14 O N N 484 T6A C15 C N N 485 T6A HOP2 H N N 486 T6A HOP3 H N N 487 T6A "H5'" H N N 488 T6A "H5''" H N N 489 T6A "H4'" H N N 490 T6A "H3'" H N N 491 T6A "HO3'" H N N 492 T6A "H2'" H N N 493 T6A "HO2'" H N N 494 T6A "H1'" H N N 495 T6A H8 H N N 496 T6A HN6 H N N 497 T6A H2 H N N 498 T6A HN1 H N N 499 T6A H12 H N N 500 T6A H13 H N N 501 T6A H14 H N N 502 T6A HO4 H N N 503 T6A H151 H N N 504 T6A H152 H N N 505 T6A H153 H N N 506 U OP3 O N N 507 U P P N N 508 U OP1 O N N 509 U OP2 O N N 510 U "O5'" O N N 511 U "C5'" C N N 512 U "C4'" C N R 513 U "O4'" O N N 514 U "C3'" C N S 515 U "O3'" O N N 516 U "C2'" C N R 517 U "O2'" O N N 518 U "C1'" C N R 519 U N1 N N N 520 U C2 C N N 521 U O2 O N N 522 U N3 N N N 523 U C4 C N N 524 U O4 O N N 525 U C5 C N N 526 U C6 C N N 527 U HOP3 H N N 528 U HOP2 H N N 529 U "H5'" H N N 530 U "H5''" H N N 531 U "H4'" H N N 532 U "H3'" H N N 533 U "HO3'" H N N 534 U "H2'" H N N 535 U "HO2'" H N N 536 U "H1'" H N N 537 U H3 H N N 538 U H5 H N N 539 U H6 H N N 540 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 1MA P OP1 doub N N 1 1MA P OP2 sing N N 2 1MA P OP3 sing N N 3 1MA P "O5'" sing N N 4 1MA OP2 HOP2 sing N N 5 1MA OP3 HOP3 sing N N 6 1MA "O5'" "C5'" sing N N 7 1MA "C5'" "C4'" sing N N 8 1MA "C5'" "H5'" sing N N 9 1MA "C5'" "H5''" sing N N 10 1MA "C4'" "O4'" sing N N 11 1MA "C4'" "C3'" sing N N 12 1MA "C4'" "H4'" sing N N 13 1MA "O4'" "C1'" sing N N 14 1MA "C3'" "O3'" sing N N 15 1MA "C3'" "C2'" sing N N 16 1MA "C3'" "H3'" sing N N 17 1MA "O3'" "HO3'" sing N N 18 1MA "C2'" "O2'" sing N N 19 1MA "C2'" "C1'" sing N N 20 1MA "C2'" "H2'" sing N N 21 1MA "O2'" "HO2'" sing N N 22 1MA "C1'" N9 sing N N 23 1MA "C1'" "H1'" sing N N 24 1MA N9 C8 sing Y N 25 1MA N9 C4 sing Y N 26 1MA C8 N7 doub Y N 27 1MA C8 H8 sing N N 28 1MA N7 C5 sing Y N 29 1MA C5 C6 sing N N 30 1MA C5 C4 doub Y N 31 1MA C6 N6 doub N N 32 1MA C6 N1 sing N N 33 1MA N6 HN61 sing N N 34 1MA N1 CM1 sing N N 35 1MA N1 C2 sing N N 36 1MA CM1 HM11 sing N N 37 1MA CM1 HM12 sing N N 38 1MA CM1 HM13 sing N N 39 1MA C2 N3 doub N N 40 1MA C2 H2 sing N N 41 1MA N3 C4 sing N N 42 1MG P OP1 doub N N 43 1MG P OP2 sing N N 44 1MG P OP3 sing N N 45 1MG P "O5'" sing N N 46 1MG OP2 HOP2 sing N N 47 1MG OP3 HOP3 sing N N 48 1MG "O5'" "C5'" sing N N 49 1MG "C5'" "C4'" sing N N 50 1MG "C5'" "H5'" sing N N 51 1MG "C5'" "H5''" sing N N 52 1MG "C4'" "O4'" sing N N 53 1MG "C4'" "C3'" sing N N 54 1MG "C4'" "H4'" sing N N 55 1MG "O4'" "C1'" sing N N 56 1MG "C3'" "O3'" sing N N 57 1MG "C3'" "C2'" sing N N 58 1MG "C3'" "H3'" sing N N 59 1MG "O3'" "HO3'" sing N N 60 1MG "C2'" "O2'" sing N N 61 1MG "C2'" "C1'" sing N N 62 1MG "C2'" "H2'" sing N N 63 1MG "O2'" "HO2'" sing N N 64 1MG "C1'" N9 sing N N 65 1MG "C1'" "H1'" sing N N 66 1MG N9 C8 sing Y N 67 1MG N9 C4 sing Y N 68 1MG C8 N7 doub Y N 69 1MG C8 H8 sing N N 70 1MG N7 C5 sing Y N 71 1MG C5 C6 sing N N 72 1MG C5 C4 doub Y N 73 1MG C6 O6 doub N N 74 1MG C6 N1 sing N N 75 1MG N1 CM1 sing N N 76 1MG N1 C2 sing N N 77 1MG CM1 HM11 sing N N 78 1MG CM1 HM12 sing N N 79 1MG CM1 HM13 sing N N 80 1MG C2 N2 sing N N 81 1MG C2 N3 doub N N 82 1MG N2 HN21 sing N N 83 1MG N2 HN22 sing N N 84 1MG N3 C4 sing N N 85 2MG P OP1 doub N N 86 2MG P OP2 sing N N 87 2MG P OP3 sing N N 88 2MG P "O5'" sing N N 89 2MG OP2 HOP2 sing N N 90 2MG OP3 HOP3 sing N N 91 2MG "O5'" "C5'" sing N N 92 2MG "C5'" "C4'" sing N N 93 2MG "C5'" "H5'" sing N N 94 2MG "C5'" "H5''" sing N N 95 2MG "C4'" "O4'" sing N N 96 2MG "C4'" "C3'" sing N N 97 2MG "C4'" "H4'" sing N N 98 2MG "O4'" "C1'" sing N N 99 2MG "C3'" "O3'" sing N N 100 2MG "C3'" "C2'" sing N N 101 2MG "C3'" "H3'" sing N N 102 2MG "O3'" "HO3'" sing N N 103 2MG "C2'" "O2'" sing N N 104 2MG "C2'" "C1'" sing N N 105 2MG "C2'" "H2'" sing N N 106 2MG "O2'" "HO2'" sing N N 107 2MG "C1'" N9 sing N N 108 2MG "C1'" "H1'" sing N N 109 2MG N9 C8 sing Y N 110 2MG N9 C4 sing Y N 111 2MG C8 N7 doub Y N 112 2MG C8 H8 sing N N 113 2MG N7 C5 sing Y N 114 2MG C5 C6 sing N N 115 2MG C5 C4 doub Y N 116 2MG C6 O6 doub N N 117 2MG C6 N1 sing N N 118 2MG N1 C2 sing N N 119 2MG N1 HN1 sing N N 120 2MG C2 N2 sing N N 121 2MG C2 N3 doub N N 122 2MG N2 CM2 sing N N 123 2MG N2 HN2 sing N N 124 2MG CM2 HM21 sing N N 125 2MG CM2 HM22 sing N N 126 2MG CM2 HM23 sing N N 127 2MG N3 C4 sing N N 128 5MC P OP1 doub N N 129 5MC P OP2 sing N N 130 5MC P OP3 sing N N 131 5MC P "O5'" sing N N 132 5MC OP2 HOP2 sing N N 133 5MC OP3 HOP3 sing N N 134 5MC "O5'" "C5'" sing N N 135 5MC "C5'" "C4'" sing N N 136 5MC "C5'" "H5'" sing N N 137 5MC "C5'" "H5''" sing N N 138 5MC "C4'" "O4'" sing N N 139 5MC "C4'" "C3'" sing N N 140 5MC "C4'" "H4'" sing N N 141 5MC "O4'" "C1'" sing N N 142 5MC "C3'" "O3'" sing N N 143 5MC "C3'" "C2'" sing N N 144 5MC "C3'" "H3'" sing N N 145 5MC "O3'" "HO3'" sing N N 146 5MC "C2'" "O2'" sing N N 147 5MC "C2'" "C1'" sing N N 148 5MC "C2'" "H2'" sing N N 149 5MC "O2'" "HO2'" sing N N 150 5MC "C1'" N1 sing N N 151 5MC "C1'" "H1'" sing N N 152 5MC N1 C2 sing N N 153 5MC N1 C6 sing N N 154 5MC C2 O2 doub N N 155 5MC C2 N3 sing N N 156 5MC N3 C4 doub N N 157 5MC C4 N4 sing N N 158 5MC C4 C5 sing N N 159 5MC N4 HN41 sing N N 160 5MC N4 HN42 sing N N 161 5MC C5 C6 doub N N 162 5MC C5 CM5 sing N N 163 5MC C6 H6 sing N N 164 5MC CM5 HM51 sing N N 165 5MC CM5 HM52 sing N N 166 5MC CM5 HM53 sing N N 167 7MG P OP1 doub N N 168 7MG P OP2 sing N N 169 7MG P OP3 sing N N 170 7MG P "O5'" sing N N 171 7MG OP2 HOP2 sing N N 172 7MG OP3 HOP3 sing N N 173 7MG "O5'" "C5'" sing N N 174 7MG "C5'" "C4'" sing N N 175 7MG "C5'" "H5'" sing N N 176 7MG "C5'" "H5''" sing N N 177 7MG "C4'" "O4'" sing N N 178 7MG "C4'" "C3'" sing N N 179 7MG "C4'" "H4'" sing N N 180 7MG "O4'" "C1'" sing N N 181 7MG "C3'" "O3'" sing N N 182 7MG "C3'" "C2'" sing N N 183 7MG "C3'" "H3'" sing N N 184 7MG "O3'" "HO3'" sing N N 185 7MG "C2'" "O2'" sing N N 186 7MG "C2'" "C1'" sing N N 187 7MG "C2'" "H2'" sing N N 188 7MG "O2'" "HO2'" sing N N 189 7MG "C1'" N9 sing N N 190 7MG "C1'" "H1'" sing N N 191 7MG N9 C8 sing N N 192 7MG N9 C4 sing N N 193 7MG C8 N7 sing N N 194 7MG C8 H81 sing N N 195 7MG C8 H82 sing N N 196 7MG N7 C5 sing N N 197 7MG N7 CM7 sing N N 198 7MG C5 C6 sing N N 199 7MG C5 C4 doub N N 200 7MG C6 O6 doub N N 201 7MG C6 N1 sing N N 202 7MG N1 C2 sing N N 203 7MG N1 HN1 sing N N 204 7MG C2 N2 sing N N 205 7MG C2 N3 doub N N 206 7MG N2 HN21 sing N N 207 7MG N2 HN22 sing N N 208 7MG N3 C4 sing N N 209 7MG CM7 HM71 sing N N 210 7MG CM7 HM72 sing N N 211 7MG CM7 HM73 sing N N 212 A OP3 P sing N N 213 A OP3 HOP3 sing N N 214 A P OP1 doub N N 215 A P OP2 sing N N 216 A P "O5'" sing N N 217 A OP2 HOP2 sing N N 218 A "O5'" "C5'" sing N N 219 A "C5'" "C4'" sing N N 220 A "C5'" "H5'" sing N N 221 A "C5'" "H5''" sing N N 222 A "C4'" "O4'" sing N N 223 A "C4'" "C3'" sing N N 224 A "C4'" "H4'" sing N N 225 A "O4'" "C1'" sing N N 226 A "C3'" "O3'" sing N N 227 A "C3'" "C2'" sing N N 228 A "C3'" "H3'" sing N N 229 A "O3'" "HO3'" sing N N 230 A "C2'" "O2'" sing N N 231 A "C2'" "C1'" sing N N 232 A "C2'" "H2'" sing N N 233 A "O2'" "HO2'" sing N N 234 A "C1'" N9 sing N N 235 A "C1'" "H1'" sing N N 236 A N9 C8 sing Y N 237 A N9 C4 sing Y N 238 A C8 N7 doub Y N 239 A C8 H8 sing N N 240 A N7 C5 sing Y N 241 A C5 C6 sing Y N 242 A C5 C4 doub Y N 243 A C6 N6 sing N N 244 A C6 N1 doub Y N 245 A N6 H61 sing N N 246 A N6 H62 sing N N 247 A N1 C2 sing Y N 248 A C2 N3 doub Y N 249 A C2 H2 sing N N 250 A N3 C4 sing Y N 251 C OP3 P sing N N 252 C OP3 HOP3 sing N N 253 C P OP1 doub N N 254 C P OP2 sing N N 255 C P "O5'" sing N N 256 C OP2 HOP2 sing N N 257 C "O5'" "C5'" sing N N 258 C "C5'" "C4'" sing N N 259 C "C5'" "H5'" sing N N 260 C "C5'" "H5''" sing N N 261 C "C4'" "O4'" sing N N 262 C "C4'" "C3'" sing N N 263 C "C4'" "H4'" sing N N 264 C "O4'" "C1'" sing N N 265 C "C3'" "O3'" sing N N 266 C "C3'" "C2'" sing N N 267 C "C3'" "H3'" sing N N 268 C "O3'" "HO3'" sing N N 269 C "C2'" "O2'" sing N N 270 C "C2'" "C1'" sing N N 271 C "C2'" "H2'" sing N N 272 C "O2'" "HO2'" sing N N 273 C "C1'" N1 sing N N 274 C "C1'" "H1'" sing N N 275 C N1 C2 sing N N 276 C N1 C6 sing N N 277 C C2 O2 doub N N 278 C C2 N3 sing N N 279 C N3 C4 doub N N 280 C C4 N4 sing N N 281 C C4 C5 sing N N 282 C N4 H41 sing N N 283 C N4 H42 sing N N 284 C C5 C6 doub N N 285 C C5 H5 sing N N 286 C C6 H6 sing N N 287 G OP3 P sing N N 288 G OP3 HOP3 sing N N 289 G P OP1 doub N N 290 G P OP2 sing N N 291 G P "O5'" sing N N 292 G OP2 HOP2 sing N N 293 G "O5'" "C5'" sing N N 294 G "C5'" "C4'" sing N N 295 G "C5'" "H5'" sing N N 296 G "C5'" "H5''" sing N N 297 G "C4'" "O4'" sing N N 298 G "C4'" "C3'" sing N N 299 G "C4'" "H4'" sing N N 300 G "O4'" "C1'" sing N N 301 G "C3'" "O3'" sing N N 302 G "C3'" "C2'" sing N N 303 G "C3'" "H3'" sing N N 304 G "O3'" "HO3'" sing N N 305 G "C2'" "O2'" sing N N 306 G "C2'" "C1'" sing N N 307 G "C2'" "H2'" sing N N 308 G "O2'" "HO2'" sing N N 309 G "C1'" N9 sing N N 310 G "C1'" "H1'" sing N N 311 G N9 C8 sing Y N 312 G N9 C4 sing Y N 313 G C8 N7 doub Y N 314 G C8 H8 sing N N 315 G N7 C5 sing Y N 316 G C5 C6 sing N N 317 G C5 C4 doub Y N 318 G C6 O6 doub N N 319 G C6 N1 sing N N 320 G N1 C2 sing N N 321 G N1 H1 sing N N 322 G C2 N2 sing N N 323 G C2 N3 doub N N 324 G N2 H21 sing N N 325 G N2 H22 sing N N 326 G N3 C4 sing N N 327 H2U P OP1 doub N N 328 H2U P OP2 sing N N 329 H2U P OP3 sing N N 330 H2U P "O5'" sing N N 331 H2U OP2 HOP2 sing N N 332 H2U OP3 HOP3 sing N N 333 H2U "O5'" "C5'" sing N N 334 H2U "C5'" "C4'" sing N N 335 H2U "C5'" "H5'" sing N N 336 H2U "C5'" "H5''" sing N N 337 H2U "C4'" "O4'" sing N N 338 H2U "C4'" "C3'" sing N N 339 H2U "C4'" "H4'" sing N N 340 H2U "O4'" "C1'" sing N N 341 H2U "C3'" "O3'" sing N N 342 H2U "C3'" "C2'" sing N N 343 H2U "C3'" "H3'" sing N N 344 H2U "O3'" "HO3'" sing N N 345 H2U "C1'" "C2'" sing N N 346 H2U "C1'" N1 sing N N 347 H2U "C1'" "H1'" sing N N 348 H2U "C2'" "O2'" sing N N 349 H2U "C2'" "H2'" sing N N 350 H2U "O2'" "HO2'" sing N N 351 H2U N1 C2 sing N N 352 H2U N1 C6 sing N N 353 H2U C2 O2 doub N N 354 H2U C2 N3 sing N N 355 H2U N3 C4 sing N N 356 H2U N3 HN3 sing N N 357 H2U C4 O4 doub N N 358 H2U C4 C5 sing N N 359 H2U C5 C6 sing N N 360 H2U C5 H51 sing N N 361 H2U C5 H52 sing N N 362 H2U C6 H61 sing N N 363 H2U C6 H62 sing N N 364 M2G P OP1 doub N N 365 M2G P OP2 sing N N 366 M2G P OP3 sing N N 367 M2G P "O5'" sing N N 368 M2G OP2 HOP2 sing N N 369 M2G OP3 HOP3 sing N N 370 M2G "O5'" "C5'" sing N N 371 M2G "C5'" "C4'" sing N N 372 M2G "C5'" "H5'" sing N N 373 M2G "C5'" "H5''" sing N N 374 M2G "C4'" "O4'" sing N N 375 M2G "C4'" "C3'" sing N N 376 M2G "C4'" "H4'" sing N N 377 M2G "O4'" "C1'" sing N N 378 M2G "C3'" "O3'" sing N N 379 M2G "C3'" "C2'" sing N N 380 M2G "C3'" "H3'" sing N N 381 M2G "O3'" "HO3'" sing N N 382 M2G "C2'" "O2'" sing N N 383 M2G "C2'" "C1'" sing N N 384 M2G "C2'" "H2'" sing N N 385 M2G "O2'" "HO2'" sing N N 386 M2G "C1'" N9 sing N N 387 M2G "C1'" "H1'" sing N N 388 M2G N9 C8 sing Y N 389 M2G N9 C4 sing Y N 390 M2G C8 N7 doub Y N 391 M2G C8 H8 sing N N 392 M2G N7 C5 sing Y N 393 M2G C5 C6 sing N N 394 M2G C5 C4 doub Y N 395 M2G C6 O6 doub N N 396 M2G C6 N1 sing N N 397 M2G N1 C2 sing N N 398 M2G N1 HN1 sing N N 399 M2G C2 N2 sing N N 400 M2G C2 N3 doub N N 401 M2G N2 CM1 sing N N 402 M2G N2 CM2 sing N N 403 M2G N3 C4 sing N N 404 M2G CM1 HM11 sing N N 405 M2G CM1 HM12 sing N N 406 M2G CM1 HM13 sing N N 407 M2G CM2 HM21 sing N N 408 M2G CM2 HM22 sing N N 409 M2G CM2 HM23 sing N N 410 RIA P OP1 doub N N 411 RIA P OP2 sing N N 412 RIA P OP3 sing N N 413 RIA P O5A sing N N 414 RIA OP2 HOP2 sing N N 415 RIA OP3 HOP3 sing N N 416 RIA O5A C5A sing N N 417 RIA C5A C4A sing N N 418 RIA C5A "H5'" sing N N 419 RIA C5A "H5''" sing N N 420 RIA C4A "O4'" sing N N 421 RIA C4A C3A sing N N 422 RIA C4A H4A sing N N 423 RIA "O4'" C1A sing N N 424 RIA C3A O3A sing N N 425 RIA C3A C2A sing N N 426 RIA C3A H3A sing N N 427 RIA O3A HO3A sing N N 428 RIA C2A O2A sing N N 429 RIA C2A C1A sing N N 430 RIA C2A H2A sing N N 431 RIA O2A "C1'" sing N N 432 RIA C1A N9 sing N N 433 RIA C1A H1A sing N N 434 RIA N9 C8 sing Y N 435 RIA N9 C4 sing Y N 436 RIA C8 N7 doub Y N 437 RIA C8 H8 sing N N 438 RIA N7 C5 sing Y N 439 RIA C5 C6 sing Y N 440 RIA C5 C4 doub Y N 441 RIA C6 N6 sing N N 442 RIA C6 N1 doub Y N 443 RIA N6 HN61 sing N N 444 RIA N6 HN62 sing N N 445 RIA N1 C2 sing Y N 446 RIA C2 N3 doub Y N 447 RIA C2 H2 sing N N 448 RIA N3 C4 sing Y N 449 RIA "C1'" "O1'" sing N N 450 RIA "C1'" "C2'" sing N N 451 RIA "C1'" "H1'" sing N N 452 RIA "O1'" "C4'" sing N N 453 RIA "C2'" "O2'" sing N N 454 RIA "C2'" "C3'" sing N N 455 RIA "C2'" "H2'" sing N N 456 RIA "O2'" "HO2'" sing N N 457 RIA "C3'" "O3'" sing N N 458 RIA "C3'" "C4'" sing N N 459 RIA "C3'" "H3'" sing N N 460 RIA "O3'" "HO3'" sing N N 461 RIA "C4'" "C5'" sing N N 462 RIA "C4'" "H4'" sing N N 463 RIA "C5'" "O5'" sing N N 464 RIA "C5'" "H5'1" sing N N 465 RIA "C5'" "H5'2" sing N N 466 RIA "O5'" "P'" sing N N 467 RIA "P'" O1X doub N N 468 RIA "P'" O2X sing N N 469 RIA "P'" O3X sing N N 470 RIA O2X "HO'2" sing N N 471 RIA O3X "HO'3" sing N N 472 T6A P OP1 doub N N 473 T6A P OP2 sing N N 474 T6A P OP3 sing N N 475 T6A P "O5'" sing N N 476 T6A OP2 HOP2 sing N N 477 T6A OP3 HOP3 sing N N 478 T6A "O5'" "C5'" sing N N 479 T6A "C5'" "C4'" sing N N 480 T6A "C5'" "H5'" sing N N 481 T6A "C5'" "H5''" sing N N 482 T6A "C4'" "O4'" sing N N 483 T6A "C4'" "C3'" sing N N 484 T6A "C4'" "H4'" sing N N 485 T6A "O4'" "C1'" sing N N 486 T6A "C3'" "O3'" sing N N 487 T6A "C3'" "C2'" sing N N 488 T6A "C3'" "H3'" sing N N 489 T6A "O3'" "HO3'" sing N N 490 T6A "C2'" "O2'" sing N N 491 T6A "C2'" "C1'" sing N N 492 T6A "C2'" "H2'" sing N N 493 T6A "O2'" "HO2'" sing N N 494 T6A "C1'" N9 sing N N 495 T6A "C1'" "H1'" sing N N 496 T6A N9 C8 sing Y N 497 T6A N9 C4 sing Y N 498 T6A C8 N7 doub Y N 499 T6A C8 H8 sing N N 500 T6A N7 C5 sing Y N 501 T6A C5 C6 sing Y N 502 T6A C5 C4 doub Y N 503 T6A C6 N6 sing N N 504 T6A C6 N1 doub Y N 505 T6A N6 C10 sing N N 506 T6A N6 HN6 sing N N 507 T6A N1 C2 sing Y N 508 T6A C2 N3 doub Y N 509 T6A C2 H2 sing N N 510 T6A N3 C4 sing Y N 511 T6A C10 O10 doub N N 512 T6A C10 N11 sing N N 513 T6A N11 C12 sing N N 514 T6A N11 HN1 sing N N 515 T6A C12 C13 sing N N 516 T6A C12 C14 sing N N 517 T6A C12 H12 sing N N 518 T6A C13 ODA doub N N 519 T6A C13 ODB sing N N 520 T6A ODB H13 sing N N 521 T6A C14 O14 sing N N 522 T6A C14 C15 sing N N 523 T6A C14 H14 sing N N 524 T6A O14 HO4 sing N N 525 T6A C15 H151 sing N N 526 T6A C15 H152 sing N N 527 T6A C15 H153 sing N N 528 U OP3 P sing N N 529 U OP3 HOP3 sing N N 530 U P OP1 doub N N 531 U P OP2 sing N N 532 U P "O5'" sing N N 533 U OP2 HOP2 sing N N 534 U "O5'" "C5'" sing N N 535 U "C5'" "C4'" sing N N 536 U "C5'" "H5'" sing N N 537 U "C5'" "H5''" sing N N 538 U "C4'" "O4'" sing N N 539 U "C4'" "C3'" sing N N 540 U "C4'" "H4'" sing N N 541 U "O4'" "C1'" sing N N 542 U "C3'" "O3'" sing N N 543 U "C3'" "C2'" sing N N 544 U "C3'" "H3'" sing N N 545 U "O3'" "HO3'" sing N N 546 U "C2'" "O2'" sing N N 547 U "C2'" "C1'" sing N N 548 U "C2'" "H2'" sing N N 549 U "O2'" "HO2'" sing N N 550 U "C1'" N1 sing N N 551 U "C1'" "H1'" sing N N 552 U N1 C2 sing N N 553 U N1 C6 sing N N 554 U C2 O2 doub N N 555 U C2 N3 sing N N 556 U N3 C4 sing N N 557 U N3 H3 sing N N 558 U C4 O4 doub N N 559 U C4 C5 sing N N 560 U C5 C6 doub N N 561 U C5 H5 sing N N 562 U C6 H6 sing N N 563 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1YFG 'double helix' 1YFG 'a-form double helix' 1YFG 'parallel strands' 1YFG 'hairpin loop' 1YFG 'mismatched base pair' 1YFG 'four-way junction' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A A 1 1_555 A U 71 1_555 0.383 -0.067 -0.158 -2.949 -18.826 0.108 1 A_A1:U72_A A 1 ? A 72 ? 20 1 1 A G 2 1_555 A C 70 1_555 0.267 -0.157 0.125 -5.503 -26.382 -3.840 2 A_G2:C71_A A 2 ? A 71 ? 19 1 1 A C 3 1_555 A G 69 1_555 0.699 -0.338 0.524 -8.515 -12.327 -2.124 3 A_C3:G70_A A 3 ? A 70 ? 19 1 1 A G 4 1_555 A C 68 1_555 -0.009 -0.186 0.444 4.503 -6.417 -2.507 4 A_G4:C69_A A 4 ? A 69 ? 19 1 1 A C 5 1_555 A G 67 1_555 0.434 -0.239 0.305 8.001 -7.595 -1.399 5 A_C5:G68_A A 5 ? A 68 ? 19 1 1 A C 6 1_555 A G 66 1_555 -0.333 -0.219 0.620 -2.359 -14.362 -3.116 6 A_C6:G67_A A 6 ? A 67 ? 19 1 1 A G 7 1_555 A C 65 1_555 -0.274 -0.368 0.747 2.496 -6.189 -3.131 7 A_G7:C66_A A 7 ? A 66 ? 19 1 1 A 5MC 48 1_555 A G 64 1_555 -0.174 -0.269 0.826 -8.186 -11.312 -6.273 8 A_5MC49:G65_A A 49 ? A 65 ? 19 1 1 A U 49 1_555 A RIA 63 1_555 -0.456 0.008 0.127 -2.281 -8.839 -6.538 9 A_U50:RIA64_A A 50 ? A 64 ? 20 1 1 A C 50 1_555 A G 62 1_555 0.127 -0.206 -0.027 5.547 -4.219 -1.726 10 A_C51:G63_A A 51 ? A 63 ? 19 1 1 A G 51 1_555 A C 61 1_555 0.116 -0.197 0.000 -2.061 -11.718 0.444 11 A_G52:C62_A A 52 ? A 62 ? 19 1 1 A G 52 1_555 A C 60 1_555 0.519 -0.165 -0.138 -11.592 -9.610 -2.698 12 A_G53:C61_A A 53 ? A 61 ? 19 1 1 A A 53 1_555 A 1MA 57 1_555 3.746 1.675 0.313 12.352 6.124 -114.161 13 A_A54:1MA58_A A 54 ? A 58 ? 5 4 1 A U 54 1_555 A G 17 1_555 0.576 -5.145 0.491 18.235 1.383 -102.486 14 A_U55:G18_A A 55 ? A 18 ? ? 2 1 A G 56 1_555 A A 19 1_555 1.932 -3.227 -2.173 28.340 -40.866 -102.868 15 A_G57:A20_A A 57 ? A 20 ? 10 6 1 A C 55 1_555 A G 18 1_555 -0.720 -0.384 0.640 4.164 -12.892 -6.217 16 A_C56:G19_A A 56 ? A 19 ? 19 1 1 A A 37 1_555 A C 31 1_555 3.686 0.169 0.858 8.894 27.246 -39.932 17 A_A38:C32_A A 38 ? A 32 ? ? ? 1 A C 38 1_555 A G 30 1_555 -0.917 -0.106 -0.101 5.603 -3.468 -0.557 18 A_C39:G31_A A 39 ? A 31 ? 19 1 1 A C 39 1_555 A G 29 1_555 -0.451 -0.124 0.185 -2.880 4.295 -7.568 19 A_C40:G30_A A 40 ? A 30 ? 19 1 1 A C 40 1_555 A G 28 1_555 0.822 -0.335 -0.135 7.332 -19.019 0.307 20 A_C41:G29_A A 41 ? A 29 ? 19 1 1 A U 41 1_555 A A 27 1_555 0.295 -0.212 -0.413 5.440 -27.035 3.274 21 A_U42:A28_A A 42 ? A 28 ? 20 1 1 A G 42 1_555 A C 26 1_555 -0.534 -0.184 -0.113 -12.235 -8.432 -4.223 22 A_G43:C27_A A 43 ? A 27 ? 19 1 1 A A 43 1_555 A M2G 25 1_555 1.175 1.246 -0.488 -17.757 -19.874 -22.640 23 A_A44:M2G26_A A 44 ? A 26 ? 8 ? 1 A 2MG 10 1_555 A C 24 1_555 0.516 -0.168 0.119 -6.058 -17.297 -2.945 24 A_2MG10:C25_A A 10 ? A 25 ? 19 1 1 A C 11 1_555 A G 23 1_555 -0.582 -0.185 -0.121 1.519 -18.594 -1.637 25 A_C11:G24_A A 11 ? A 24 ? 19 1 1 A G 12 1_555 A C 22 1_555 0.110 -0.092 0.091 -10.033 -13.256 -3.856 26 A_G12:C23_A A 12 ? A 23 ? 19 1 1 A C 13 1_555 A G 21 1_555 0.858 -0.407 -0.187 -1.503 -10.494 -0.159 27 A_C13:G22_A A 13 ? A 22 ? 19 1 1 A A 14 1_555 A U 8 1_555 -4.144 -2.051 1.260 2.343 22.396 -96.351 28 A_A14:U8_A A 14 ? A 8 ? 24 4 1 A G 15 1_555 A 5MC 47 1_555 0.077 3.583 -0.155 -2.784 1.974 155.535 29 A_G15:5MC48_A A 15 ? A 48 ? 22 2 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A A 1 1_555 A U 71 1_555 A G 2 1_555 A C 70 1_555 0.013 -1.719 3.418 -2.439 6.013 36.446 -3.521 -0.349 3.098 9.521 3.861 37.000 1 AA_A1G2:C71U72_AA A 1 ? A 72 ? A 2 ? A 71 ? 1 A G 2 1_555 A C 70 1_555 A C 3 1_555 A G 69 1_555 -0.106 -1.365 3.224 -2.370 5.144 34.432 -3.024 -0.167 2.996 8.618 3.971 34.881 2 AA_G2C3:G70C71_AA A 2 ? A 71 ? A 3 ? A 70 ? 1 A C 3 1_555 A G 69 1_555 A G 4 1_555 A C 68 1_555 -0.204 -1.932 2.727 0.130 7.096 25.290 -5.696 0.476 2.114 15.815 -0.290 26.252 3 AA_C3G4:C69G70_AA A 3 ? A 70 ? A 4 ? A 69 ? 1 A G 4 1_555 A C 68 1_555 A C 5 1_555 A G 67 1_555 0.268 -1.286 3.144 1.041 4.537 36.903 -2.584 -0.290 2.977 7.132 -1.637 37.185 4 AA_G4C5:G68C69_AA A 4 ? A 69 ? A 5 ? A 68 ? 1 A C 5 1_555 A G 67 1_555 A C 6 1_555 A G 66 1_555 0.122 -2.289 3.387 0.839 6.160 22.228 -7.756 -0.028 2.666 15.590 -2.124 23.070 5 AA_C5C6:G67G68_AA A 5 ? A 68 ? A 6 ? A 67 ? 1 A C 6 1_555 A G 66 1_555 A G 7 1_555 A C 65 1_555 -0.069 -1.949 2.688 -0.717 15.106 36.265 -4.189 0.042 1.770 23.073 1.096 39.194 6 AA_C6G7:C66G67_AA A 6 ? A 67 ? A 7 ? A 66 ? 1 A G 7 1_555 A C 65 1_555 A 5MC 48 1_555 A G 64 1_555 -0.782 -2.225 3.450 -4.368 4.697 35.380 -4.293 0.627 3.209 7.650 7.115 35.938 7 AA_G75MC49:G65C66_AA A 7 ? A 66 ? A 49 ? A 65 ? 1 A 5MC 48 1_555 A G 64 1_555 A U 49 1_555 A RIA 63 1_555 -1.043 -2.428 2.821 0.355 -0.923 28.561 -4.737 2.182 2.883 -1.869 -0.719 28.578 8 AA_5MC49U50:RIA64G65_AA A 49 ? A 65 ? A 50 ? A 64 ? 1 A U 49 1_555 A RIA 63 1_555 A C 50 1_555 A G 62 1_555 0.010 -1.526 3.122 -0.857 3.692 36.354 -2.908 -0.126 2.957 5.898 1.369 36.544 9 AA_U50C51:G63RIA64_AA A 50 ? A 64 ? A 51 ? A 63 ? 1 A C 50 1_555 A G 62 1_555 A G 51 1_555 A C 61 1_555 0.340 -1.834 3.452 0.287 3.981 31.053 -4.167 -0.575 3.201 7.397 -0.534 31.302 10 AA_C51G52:C62G63_AA A 51 ? A 63 ? A 52 ? A 62 ? 1 A G 51 1_555 A C 61 1_555 A G 52 1_555 A C 60 1_555 0.076 -2.159 3.476 2.874 5.578 36.489 -4.164 0.273 3.121 8.829 -4.548 37.007 11 AA_G52G53:C61C62_AA A 52 ? A 62 ? A 53 ? A 61 ? 1 A G 52 1_555 A C 60 1_555 A A 53 1_555 A 1MA 57 1_555 -3.161 -3.703 2.962 -3.606 -4.289 69.760 -3.083 2.634 3.295 -3.744 3.148 69.956 12 AA_G53A54:1MA58C61_AA A 53 ? A 61 ? A 54 ? A 58 ? 1 A A 53 1_555 A 1MA 57 1_555 A U 54 1_555 A G 17 1_555 2.666 -2.580 3.401 7.811 7.472 55.397 -3.172 -2.361 3.373 7.953 -8.313 56.359 13 AA_A54U55:G181MA58_AA A 54 ? A 58 ? A 55 ? A 18 ? 1 A U 54 1_555 A G 17 1_555 A G 56 1_555 A A 19 1_555 -2.516 3.762 -4.055 139.806 1.293 73.661 1.976 -0.826 -4.468 0.718 -77.628 148.077 14 AA_U55G57:A20G18_AA A 55 ? A 18 ? A 57 ? A 20 ? 1 A G 56 1_555 A A 19 1_555 A C 55 1_555 A G 18 1_555 0.908 2.292 -3.693 20.893 8.134 -88.223 -1.421 0.141 -3.951 -5.766 14.811 -90.456 15 AA_G57C56:G19A20_AA A 57 ? A 20 ? A 56 ? A 19 ? 1 A A 37 1_555 A C 31 1_555 A C 38 1_555 A G 30 1_555 1.925 -1.842 3.465 0.113 7.744 7.799 -19.616 -9.910 1.185 44.862 -0.653 10.987 16 AA_A38C39:G31C32_AA A 38 ? A 32 ? A 39 ? A 31 ? 1 A C 38 1_555 A G 30 1_555 A C 39 1_555 A G 29 1_555 -0.724 -2.613 3.017 -9.357 6.270 35.751 -4.802 0.040 2.638 9.915 14.796 37.428 17 AA_C39C40:G30G31_AA A 39 ? A 31 ? A 40 ? A 30 ? 1 A C 39 1_555 A G 29 1_555 A C 40 1_555 A G 28 1_555 0.081 -1.880 3.334 -1.480 -2.143 31.142 -3.070 -0.442 3.445 -3.983 2.751 31.248 18 AA_C40C41:G29G30_AA A 40 ? A 30 ? A 41 ? A 29 ? 1 A C 40 1_555 A G 28 1_555 A U 41 1_555 A A 27 1_555 -0.325 -0.791 3.060 0.858 13.695 24.572 -4.451 0.846 2.293 29.428 -1.844 28.093 19 AA_C41U42:A28G29_AA A 41 ? A 29 ? A 42 ? A 28 ? 1 A U 41 1_555 A A 27 1_555 A G 42 1_555 A C 26 1_555 -0.614 -1.445 3.875 -10.286 10.377 29.764 -4.551 -0.918 3.239 18.840 18.676 33.084 20 AA_U42G43:C27A28_AA A 42 ? A 28 ? A 43 ? A 27 ? 1 A G 42 1_555 A C 26 1_555 A A 43 1_555 A M2G 25 1_555 -1.299 -1.758 3.209 3.031 7.679 46.350 -2.788 1.859 2.814 9.666 -3.815 47.039 21 AA_G43A44:M2G26C27_AA A 43 ? A 27 ? A 44 ? A 26 ? 1 A A 43 1_555 A M2G 25 1_555 A 2MG 10 1_555 A C 24 1_555 -3.326 -2.494 3.433 12.526 8.730 53.053 -3.157 4.258 2.249 9.552 -13.705 55.053 22 AA_A442MG10:C25M2G26_AA A 44 ? A 26 ? A 10 ? A 25 ? 1 A 2MG 10 1_555 A C 24 1_555 A C 11 1_555 A G 23 1_555 -0.999 -2.041 2.929 -4.351 4.582 24.392 -5.842 1.187 2.642 10.618 10.084 25.185 23 AA_2MG10C11:G24C25_AA A 10 ? A 25 ? A 11 ? A 24 ? 1 A C 11 1_555 A G 23 1_555 A G 12 1_555 A C 22 1_555 -0.040 -1.281 3.572 -2.319 10.093 40.066 -2.950 -0.204 3.170 14.441 3.318 41.329 24 AA_C11G12:C23G24_AA A 11 ? A 24 ? A 12 ? A 23 ? 1 A G 12 1_555 A C 22 1_555 A C 13 1_555 A G 21 1_555 1.551 -1.966 3.224 7.548 2.011 33.085 -3.694 -1.421 3.364 3.471 -13.029 33.969 25 AA_G12C13:G22C23_AA A 12 ? A 23 ? A 13 ? A 22 ? 1 A C 13 1_555 A G 21 1_555 A A 14 1_555 A U 8 1_555 -1.843 0.182 3.430 -4.540 -5.485 60.515 0.460 1.586 3.520 -5.422 4.488 60.893 26 AA_C13A14:U8G22_AA A 13 ? A 22 ? A 14 ? A 8 ? 1 A A 14 1_555 A U 8 1_555 A G 15 1_555 A 5MC 47 1_555 1.968 -3.143 3.230 2.432 13.957 -70.858 2.175 1.759 3.654 -11.920 2.077 -72.078 27 AA_A14G15:5MC48U8_AA A 14 ? A 8 ? A 15 ? A 48 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'Schevitz et al (1979), 278, 188-190. (4A structure)' # _atom_sites.entry_id 1YFG _atom_sites.fract_transf_matrix[1][1] 0.008794 _atom_sites.fract_transf_matrix[1][2] 0.005077 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.010154 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.007324 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_