data_1Z79 # _entry.id 1Z79 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.376 _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 1Z79 pdb_00001z79 10.2210/pdb1z79/pdb NDB AR0060 ? ? RCSB RCSB032386 ? ? WWPDB D_1000032386 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1Z7F . unspecified PDB 1YRM . unspecified PDB 1YY0 . unspecified PDB 1YZD . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1Z79 _pdbx_database_status.recvd_initial_deposition_date 2005-03-24 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _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 'Gherghe, C.M.' 1 'Krahn, J.M.' 2 'Weeks, K.M.' 3 # _citation.id primary _citation.title ;Crystal structures, reactivity and inferred acylation transition States for 2'-amine substituted RNA. ; _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_volume 127 _citation.page_first 13622 _citation.page_last 13628 _citation.year 2005 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16190727 _citation.pdbx_database_id_DOI 10.1021/ja053647y # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gherghe, C.M.' 1 ? primary 'Krahn, J.M.' 2 ? primary 'Weeks, K.M.' 3 ? # _cell.entry_id 1Z79 _cell.length_a 43.000 _cell.length_b 43.000 _cell.length_c 122.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Z79 _symmetry.space_group_name_H-M 'P 31 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA 5'-R(*GP*CP*AP*GP*AP*(A5M)P*UP*UP*AP*AP*AP*UP*CP*UP*GP*C)-3' ; 5081.094 3 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 1 ? ? ? ? 3 water nat water 18.015 34 ? ? ? ? # _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 'GCAGA(A5M)UUAAAUCUGC' _entity_poly.pdbx_seq_one_letter_code_can GCAGACUUAAAUCUGC _entity_poly.pdbx_strand_id B,A,C _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 G n 1 2 C n 1 3 A n 1 4 G n 1 5 A n 1 6 A5M n 1 7 U n 1 8 U n 1 9 A n 1 10 A n 1 11 A n 1 12 U n 1 13 C n 1 14 U n 1 15 G n 1 16 C n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1Z79 _struct_ref.pdbx_db_accession 1Z79 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1Z79 B 1 ? 16 ? 1Z79 1 ? 16 ? 1 16 2 1 1Z79 A 1 ? 16 ? 1Z79 1 ? 16 ? 1 16 3 1 1Z79 C 1 ? 16 ? 1Z79 1 ? 16 ? 1 16 # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 A5M 'RNA linking' n "2'-AMINE-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H15 N4 O7 P' 322.212 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 1Z79 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.14 _exptl_crystal.density_percent_sol 42.41 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 273 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.2 _exptl_crystal_grow.pdbx_details 'MPD, Na cacodylate, spermine, calcium chloride, pH 5.2, VAPOR DIFFUSION, SITTING DROP, temperature 273K' _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 MPD ? ? ? 1 2 1 'Na cacodylate' ? ? ? 1 3 1 spermine ? ? ? 1 4 1 'calcium chloride' ? ? ? 1 5 1 H2O ? ? ? 1 6 2 MPD ? ? ? 1 7 2 'Na cacodylate' ? ? ? 1 8 2 'calcium chloride' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV++' _diffrn_detector.pdbx_collection_date 2003-02-14 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type RIGAKU _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1Z79 _reflns.observed_criterion_sigma_I 1 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 23 _reflns.d_resolution_high 2.5 _reflns.number_obs 4904 _reflns.number_all 4979 _reflns.percent_possible_obs 98.6 _reflns.pdbx_Rmerge_I_obs 0.08 _reflns.pdbx_Rsym_value 0.1 _reflns.pdbx_netI_over_sigmaI 11.65 _reflns.B_iso_Wilson_estimate 60.4 _reflns.pdbx_redundancy 14.29 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.50 _reflns_shell.d_res_low 2.59 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.5 _reflns_shell.pdbx_Rsym_value 0.419 _reflns_shell.meanI_over_sigI_obs 2.86 _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 465 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1Z79 _refine.ls_number_reflns_obs 4436 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 550839.87 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.08 _refine.ls_d_res_high 2.55 _refine.ls_percent_reflns_obs 99.3 _refine.ls_R_factor_obs 0.217 _refine.ls_R_factor_all 0.217 _refine.ls_R_factor_R_work 0.217 _refine.ls_R_factor_R_free 0.262 _refine.ls_R_factor_R_free_error 0.017 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.6 _refine.ls_number_reflns_R_free 248 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 38.6 _refine.aniso_B[1][1] 7.13 _refine.aniso_B[2][2] 7.13 _refine.aniso_B[3][3] -14.26 _refine.aniso_B[1][2] 2.72 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.375414 _refine.solvent_model_param_bsol 40.6488 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 1YRM _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_overall_ESU_R ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1Z79 _refine_analyze.Luzzati_coordinate_error_obs 0.33 _refine_analyze.Luzzati_sigma_a_obs 0.40 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.39 _refine_analyze.Luzzati_sigma_a_free 0.46 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 1008 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 34 _refine_hist.number_atoms_total 1043 _refine_hist.d_res_high 2.55 _refine_hist.d_res_low 8.08 # 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 c_bond_d 0.005 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 0.9 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 6.9 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.37 ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it 0.00 1.50 ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it 0.00 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scbond_it 1.36 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scangle_it 1.85 2.50 ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.55 _refine_ls_shell.d_res_low 2.70 _refine_ls_shell.number_reflns_R_work 682 _refine_ls_shell.R_factor_R_work 0.332 _refine_ls_shell.percent_reflns_obs 99.9 _refine_ls_shell.R_factor_R_free 0.344 _refine_ls_shell.R_factor_R_free_error 0.051 _refine_ls_shell.percent_reflns_R_free 6.2 _refine_ls_shell.number_reflns_R_free 45 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 C2N.PARAM C2N.TOP 'X-RAY DIFFRACTION' 2 DNA-RNA.PARAM DNA-RNA.TOP 'X-RAY DIFFRACTION' 3 WATER.PARAM WATER.TOP 'X-RAY DIFFRACTION' 4 ION.PARAM ION.TOP 'X-RAY DIFFRACTION' # _struct.entry_id 1Z79 _struct.title ;Crystal structure of an RNA duplex containing site specific 2'-amine substitution at a C-A mismatch (at pH 5) ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1Z79 _struct_keywords.pdbx_keywords RNA _struct_keywords.text ;2'-AMINE, RNA, DUPLEX, MISMATCH ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 3 ? # loop_ _struct_biol.id _struct_biol.pdbx_parent_biol_id _struct_biol.details 1 ? ? 2 ? ? # 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 A 5 "O3'" ? ? ? 1_555 A A5M 6 P ? ? B A 5 B A5M 6 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale2 covale both ? A A5M 6 "O3'" ? ? ? 1_555 A U 7 P ? ? B A5M 6 B U 7 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale3 covale both ? B A 5 "O3'" ? ? ? 1_555 B A5M 6 P ? ? A A 5 A A5M 6 1_555 ? ? ? ? ? ? ? 1.615 ? ? covale4 covale both ? B A5M 6 "O3'" ? ? ? 1_555 B U 7 P ? ? A A5M 6 A U 7 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale5 covale both ? C A 5 "O3'" ? ? ? 1_555 C A5M 6 P ? ? C A 5 C A5M 6 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale6 covale both ? C A5M 6 "O3'" ? ? ? 1_555 C U 7 P ? ? C A5M 6 C U 7 1_555 ? ? ? ? ? ? ? 1.603 ? ? metalc1 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? C CA 17 C HOH 18 1_555 ? ? ? ? ? ? ? 3.175 ? ? metalc2 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O ? ? C CA 17 C HOH 18 6_765 ? ? ? ? ? ? ? 3.174 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 16 N3 ? ? B G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 16 O2 ? ? B G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 16 N4 ? ? B G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 15 N1 ? ? B C 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 15 O6 ? ? B C 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 15 N2 ? ? B C 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 14 N3 ? ? B A 3 A U 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 14 O4 ? ? B A 3 A U 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 13 N3 ? ? B G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 13 O2 ? ? B G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 13 N4 ? ? B G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 12 N3 ? ? B A 5 A U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 12 O4 ? ? B A 5 A U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A5M 6 O2 ? ? ? 1_555 B A 11 N6 ? ? B A5M 6 A A 11 1_555 ? ? ? ? ? ? 'A5M-A MISPAIR' ? ? ? hydrog15 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 10 N1 ? ? B U 7 A A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 10 N6 ? ? B U 7 A A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 9 N1 ? ? B U 8 A A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 9 N6 ? ? B U 8 A A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 9 N1 ? ? ? 1_555 B U 8 N3 ? ? B A 9 A U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 9 N6 ? ? ? 1_555 B U 8 O4 ? ? B A 9 A U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 7 N3 ? ? B A 10 A U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 7 O4 ? ? B A 10 A U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A A 11 N6 ? ? ? 1_555 B A5M 6 N3 ? ? B A 11 A A5M 6 1_555 ? ? ? ? ? ? 'A-A5M MISPAIR' ? ? ? hydrog24 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 5 N1 ? ? B U 12 A A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 5 N6 ? ? B U 12 A A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 4 N1 ? ? B C 13 A G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 4 O6 ? ? B C 13 A G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 4 N2 ? ? B C 13 A G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 14 N3 ? ? ? 1_555 B A 3 N1 ? ? B U 14 A A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A U 14 O4 ? ? ? 1_555 B A 3 N6 ? ? B U 14 A A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 15 N1 ? ? ? 1_555 B C 2 N3 ? ? B G 15 A C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 15 N2 ? ? ? 1_555 B C 2 O2 ? ? B G 15 A C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 15 O6 ? ? ? 1_555 B C 2 N4 ? ? B G 15 A C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 16 N3 ? ? ? 1_555 B G 1 N1 ? ? B C 16 A G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 16 N4 ? ? ? 1_555 B G 1 O6 ? ? B C 16 A G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 16 O2 ? ? ? 1_555 B G 1 N2 ? ? B C 16 A G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C G 1 N1 ? ? ? 1_555 C C 16 N3 ? ? C G 1 C C 16 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C G 1 N2 ? ? ? 1_555 C C 16 O2 ? ? C G 1 C C 16 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C G 1 O6 ? ? ? 1_555 C C 16 N4 ? ? C G 1 C C 16 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C C 2 N3 ? ? ? 1_555 C G 15 N1 ? ? C C 2 C G 15 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C C 2 N4 ? ? ? 1_555 C G 15 O6 ? ? C C 2 C G 15 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C C 2 O2 ? ? ? 1_555 C G 15 N2 ? ? C C 2 C G 15 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C A 3 N1 ? ? ? 1_555 C U 14 N3 ? ? C A 3 C U 14 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C A 3 N6 ? ? ? 1_555 C U 14 O4 ? ? C A 3 C U 14 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C G 4 N1 ? ? ? 1_555 C C 13 N3 ? ? C G 4 C C 13 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C G 4 N2 ? ? ? 1_555 C C 13 O2 ? ? C G 4 C C 13 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C G 4 O6 ? ? ? 1_555 C C 13 N4 ? ? C G 4 C C 13 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C A 5 N1 ? ? ? 1_555 C U 12 N3 ? ? C A 5 C U 12 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C A 5 N6 ? ? ? 1_555 C U 12 O4 ? ? C A 5 C U 12 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C A5M 6 O2 ? ? ? 1_555 C A 11 N6 ? ? C A5M 6 C A 11 6_765 ? ? ? ? ? ? 'A5M-A MISPAIR' ? ? ? hydrog51 hydrog ? ? C U 7 N3 ? ? ? 1_555 C A 10 N1 ? ? C U 7 C A 10 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C U 7 O4 ? ? ? 1_555 C A 10 N6 ? ? C U 7 C A 10 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C U 8 N3 ? ? ? 1_555 C A 9 N1 ? ? C U 8 C A 9 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C U 8 O4 ? ? ? 1_555 C A 9 N6 ? ? C U 8 C A 9 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C A 9 N1 ? ? ? 1_555 C U 8 N3 ? ? C A 9 C U 8 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C A 9 N6 ? ? ? 1_555 C U 8 O4 ? ? C A 9 C U 8 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C A 10 N1 ? ? ? 1_555 C U 7 N3 ? ? C A 10 C U 7 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C A 10 N6 ? ? ? 1_555 C U 7 O4 ? ? C A 10 C U 7 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C A 11 N6 ? ? ? 1_555 C A5M 6 O2 ? ? C A 11 C A5M 6 6_765 ? ? ? ? ? ? 'A-A5M MISPAIR' ? ? ? hydrog60 hydrog ? ? C U 12 N3 ? ? ? 1_555 C A 5 N1 ? ? C U 12 C A 5 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C U 12 O4 ? ? ? 1_555 C A 5 N6 ? ? C U 12 C A 5 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C C 13 N3 ? ? ? 1_555 C G 4 N1 ? ? C C 13 C G 4 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C C 13 N4 ? ? ? 1_555 C G 4 O6 ? ? C C 13 C G 4 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C C 13 O2 ? ? ? 1_555 C G 4 N2 ? ? C C 13 C G 4 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C U 14 N3 ? ? ? 1_555 C A 3 N1 ? ? C U 14 C A 3 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? C U 14 O4 ? ? ? 1_555 C A 3 N6 ? ? C U 14 C A 3 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? C G 15 N1 ? ? ? 1_555 C C 2 N3 ? ? C G 15 C C 2 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? C G 15 N2 ? ? ? 1_555 C C 2 O2 ? ? C G 15 C C 2 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C G 15 O6 ? ? ? 1_555 C C 2 N4 ? ? C G 15 C C 2 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? C C 16 N3 ? ? ? 1_555 C G 1 N1 ? ? C C 16 C G 1 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? C C 16 N4 ? ? ? 1_555 C G 1 O6 ? ? C C 16 C G 1 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? C C 16 O2 ? ? ? 1_555 C G 1 N2 ? ? C C 16 C G 1 6_765 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _database_PDB_matrix.entry_id 1Z79 _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 # _atom_sites.entry_id 1Z79 _atom_sites.fract_transf_matrix[1][1] 0.023256 _atom_sites.fract_transf_matrix[1][2] 0.013427 _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] 0.026854 _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] 0.008197 _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 CA N O P # 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 G 1 1 1 G G B . n A 1 2 C 2 2 2 C C B . n A 1 3 A 3 3 3 A A B . n A 1 4 G 4 4 4 G G B . n A 1 5 A 5 5 5 A A B . n A 1 6 A5M 6 6 6 A5M A5M B . n A 1 7 U 7 7 7 U U B . n A 1 8 U 8 8 8 U U B . n A 1 9 A 9 9 9 A A B . n A 1 10 A 10 10 10 A A B . n A 1 11 A 11 11 11 A A B . n A 1 12 U 12 12 12 U U B . n A 1 13 C 13 13 13 C C B . n A 1 14 U 14 14 14 U U B . n A 1 15 G 15 15 15 G G B . n A 1 16 C 16 16 16 C C B . n B 1 1 G 1 1 1 G G A . n B 1 2 C 2 2 2 C C A . n B 1 3 A 3 3 3 A A A . n B 1 4 G 4 4 4 G G A . n B 1 5 A 5 5 5 A A A . n B 1 6 A5M 6 6 6 A5M A5M A . n B 1 7 U 7 7 7 U U A . n B 1 8 U 8 8 8 U U A . n B 1 9 A 9 9 9 A A A . n B 1 10 A 10 10 10 A A A . n B 1 11 A 11 11 11 A A A . n B 1 12 U 12 12 12 U U A . n B 1 13 C 13 13 13 C C A . n B 1 14 U 14 14 14 U U A . n B 1 15 G 15 15 15 G G A . n B 1 16 C 16 16 16 C C A . n C 1 1 G 1 1 1 G G C . n C 1 2 C 2 2 2 C C C . n C 1 3 A 3 3 3 A A C . n C 1 4 G 4 4 4 G G C . n C 1 5 A 5 5 5 A A C . n C 1 6 A5M 6 6 6 A5M A5M C . n C 1 7 U 7 7 7 U U C . n C 1 8 U 8 8 8 U U C . n C 1 9 A 9 9 9 A A C . n C 1 10 A 10 10 10 A A C . n C 1 11 A 11 11 11 A A C . n C 1 12 U 12 12 12 U U C . n C 1 13 C 13 13 13 C C C . n C 1 14 U 14 14 14 U U C . n C 1 15 G 15 15 15 G G C . n C 1 16 C 16 16 16 C C C . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code D 2 CA 1 17 1 CA CA C . E 3 HOH 1 17 5 HOH HOH B . E 3 HOH 2 18 7 HOH HOH B . E 3 HOH 3 19 10 HOH HOH B . E 3 HOH 4 20 14 HOH HOH B . E 3 HOH 5 21 16 HOH HOH B . E 3 HOH 6 22 24 HOH HOH B . E 3 HOH 7 23 27 HOH HOH B . E 3 HOH 8 24 31 HOH HOH B . E 3 HOH 9 25 34 HOH HOH B . E 3 HOH 10 26 35 HOH HOH B . F 3 HOH 1 17 3 HOH HOH A . F 3 HOH 2 18 9 HOH HOH A . F 3 HOH 3 19 11 HOH HOH A . F 3 HOH 4 20 13 HOH HOH A . F 3 HOH 5 21 21 HOH HOH A . F 3 HOH 6 22 22 HOH HOH A . F 3 HOH 7 23 25 HOH HOH A . F 3 HOH 8 24 28 HOH HOH A . F 3 HOH 9 25 32 HOH HOH A . G 3 HOH 1 18 2 HOH HOH C . G 3 HOH 2 19 4 HOH HOH C . G 3 HOH 3 20 6 HOH HOH C . G 3 HOH 4 21 8 HOH HOH C . G 3 HOH 5 22 12 HOH HOH C . G 3 HOH 6 23 15 HOH HOH C . G 3 HOH 7 24 17 HOH HOH C . G 3 HOH 8 25 18 HOH HOH C . G 3 HOH 9 26 19 HOH HOH C . G 3 HOH 10 27 20 HOH HOH C . G 3 HOH 11 28 23 HOH HOH C . G 3 HOH 12 29 26 HOH HOH C . G 3 HOH 13 30 29 HOH HOH C . G 3 HOH 14 31 30 HOH HOH C . G 3 HOH 15 32 33 HOH HOH C . # 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 A5M 6 B A5M 6 ? C "2'-AMINE-CYTIDINE-5'-MONOPHOSPHATE" 2 B A5M 6 A A5M 6 ? C "2'-AMINE-CYTIDINE-5'-MONOPHOSPHATE" 3 C A5M 6 C A5M 6 ? C "2'-AMINE-CYTIDINE-5'-MONOPHOSPHATE" # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1,2 C,D,G # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 6_765 -x+2,-x+y+1,-z+1/3 -0.5000000000 -0.8660254038 0.0000000000 64.5000000000 -0.8660254038 0.5000000000 0.0000000000 37.2390923627 0.0000000000 0.0000000000 -1.0000000000 40.6666666667 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id C _pdbx_struct_special_symmetry.auth_comp_id CA _pdbx_struct_special_symmetry.auth_seq_id 17 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id D _pdbx_struct_special_symmetry.label_comp_id CA _pdbx_struct_special_symmetry.label_seq_id . # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id O _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id G _pdbx_struct_conn_angle.ptnr1_label_comp_id HOH _pdbx_struct_conn_angle.ptnr1_label_seq_id . _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id C _pdbx_struct_conn_angle.ptnr1_auth_comp_id HOH _pdbx_struct_conn_angle.ptnr1_auth_seq_id 18 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id CA _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id D _pdbx_struct_conn_angle.ptnr2_label_comp_id CA _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id C _pdbx_struct_conn_angle.ptnr2_auth_comp_id CA _pdbx_struct_conn_angle.ptnr2_auth_seq_id 17 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id O _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id G _pdbx_struct_conn_angle.ptnr3_label_comp_id HOH _pdbx_struct_conn_angle.ptnr3_label_seq_id . _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id C _pdbx_struct_conn_angle.ptnr3_auth_comp_id HOH _pdbx_struct_conn_angle.ptnr3_auth_seq_id 18 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 6_765 _pdbx_struct_conn_angle.value 127.4 _pdbx_struct_conn_angle.value_esd ? # 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 2005-10-18 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-11-16 5 'Structure model' 1 4 2023-08-23 # _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' 'Version format compliance' 3 4 'Structure model' 'Atomic model' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' pdbx_initial_refinement_model 5 5 'Structure model' struct_conn # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_struct_conn.pdbx_dist_value' 4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 5 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 6 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 7 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 8 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 1.1 ? 1 CrystalClear 'data reduction' '(MSC/RIGAKU)' ? 2 SCALEPACK 'data scaling' . ? 3 CNS phasing . ? 4 # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 A5M P P N N 38 A5M OP1 O N N 39 A5M OP2 O N N 40 A5M "O5'" O N N 41 A5M "C5'" C N N 42 A5M "C4'" C N R 43 A5M "O4'" O N N 44 A5M "C1'" C N R 45 A5M N1 N N N 46 A5M C6 C N N 47 A5M C2 C N N 48 A5M O2 O N N 49 A5M N3 N N N 50 A5M C4 C N N 51 A5M N4 N N N 52 A5M C5 C N N 53 A5M "C2'" C N R 54 A5M "N2'" N N N 55 A5M "C3'" C N S 56 A5M "O3'" O N N 57 A5M OP3 O N N 58 A5M HOP2 H N N 59 A5M "H5'" H N N 60 A5M "H5''" H N N 61 A5M "H4'" H N N 62 A5M "H1'" H N N 63 A5M H6 H N N 64 A5M H41 H N N 65 A5M H42 H N N 66 A5M H5 H N N 67 A5M "H2'" H N N 68 A5M "H'1N" H N N 69 A5M "H'2N" H N N 70 A5M "H3'" H N N 71 A5M "HO3'" H N N 72 A5M HOP3 H N N 73 C OP3 O N N 74 C P P N N 75 C OP1 O N N 76 C OP2 O N N 77 C "O5'" O N N 78 C "C5'" C N N 79 C "C4'" C N R 80 C "O4'" O N N 81 C "C3'" C N S 82 C "O3'" O N N 83 C "C2'" C N R 84 C "O2'" O N N 85 C "C1'" C N R 86 C N1 N N N 87 C C2 C N N 88 C O2 O N N 89 C N3 N N N 90 C C4 C N N 91 C N4 N N N 92 C C5 C N N 93 C C6 C N N 94 C HOP3 H N N 95 C HOP2 H N N 96 C "H5'" H N N 97 C "H5''" H N N 98 C "H4'" H N N 99 C "H3'" H N N 100 C "HO3'" H N N 101 C "H2'" H N N 102 C "HO2'" H N N 103 C "H1'" H N N 104 C H41 H N N 105 C H42 H N N 106 C H5 H N N 107 C H6 H N N 108 CA CA CA N N 109 G OP3 O N N 110 G P P N N 111 G OP1 O N N 112 G OP2 O N N 113 G "O5'" O N N 114 G "C5'" C N N 115 G "C4'" C N R 116 G "O4'" O N N 117 G "C3'" C N S 118 G "O3'" O N N 119 G "C2'" C N R 120 G "O2'" O N N 121 G "C1'" C N R 122 G N9 N Y N 123 G C8 C Y N 124 G N7 N Y N 125 G C5 C Y N 126 G C6 C N N 127 G O6 O N N 128 G N1 N N N 129 G C2 C N N 130 G N2 N N N 131 G N3 N N N 132 G C4 C Y N 133 G HOP3 H N N 134 G HOP2 H N N 135 G "H5'" H N N 136 G "H5''" H N N 137 G "H4'" H N N 138 G "H3'" H N N 139 G "HO3'" H N N 140 G "H2'" H N N 141 G "HO2'" H N N 142 G "H1'" H N N 143 G H8 H N N 144 G H1 H N N 145 G H21 H N N 146 G H22 H N N 147 HOH O O N N 148 HOH H1 H N N 149 HOH H2 H N N 150 U OP3 O N N 151 U P P N N 152 U OP1 O N N 153 U OP2 O N N 154 U "O5'" O N N 155 U "C5'" C N N 156 U "C4'" C N R 157 U "O4'" O N N 158 U "C3'" C N S 159 U "O3'" O N N 160 U "C2'" C N R 161 U "O2'" O N N 162 U "C1'" C N R 163 U N1 N N N 164 U C2 C N N 165 U O2 O N N 166 U N3 N N N 167 U C4 C N N 168 U O4 O N N 169 U C5 C N N 170 U C6 C N N 171 U HOP3 H N N 172 U HOP2 H N N 173 U "H5'" H N N 174 U "H5''" H N N 175 U "H4'" H N N 176 U "H3'" H N N 177 U "HO3'" H N N 178 U "H2'" H N N 179 U "HO2'" H N N 180 U "H1'" H N N 181 U H3 H N N 182 U H5 H N N 183 U H6 H N N 184 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 A5M P OP1 doub N N 40 A5M P OP2 sing N N 41 A5M P "O5'" sing N N 42 A5M P OP3 sing N N 43 A5M OP2 HOP2 sing N N 44 A5M "O5'" "C5'" sing N N 45 A5M "C5'" "C4'" sing N N 46 A5M "C5'" "H5'" sing N N 47 A5M "C5'" "H5''" sing N N 48 A5M "C4'" "O4'" sing N N 49 A5M "C4'" "C3'" sing N N 50 A5M "C4'" "H4'" sing N N 51 A5M "O4'" "C1'" sing N N 52 A5M "C1'" N1 sing N N 53 A5M "C1'" "C2'" sing N N 54 A5M "C1'" "H1'" sing N N 55 A5M N1 C6 sing N N 56 A5M N1 C2 sing N N 57 A5M C6 C5 doub N N 58 A5M C6 H6 sing N N 59 A5M C2 O2 doub N N 60 A5M C2 N3 sing N N 61 A5M N3 C4 doub N N 62 A5M C4 N4 sing N N 63 A5M C4 C5 sing N N 64 A5M N4 H41 sing N N 65 A5M N4 H42 sing N N 66 A5M C5 H5 sing N N 67 A5M "C2'" "N2'" sing N N 68 A5M "C2'" "C3'" sing N N 69 A5M "C2'" "H2'" sing N N 70 A5M "N2'" "H'1N" sing N N 71 A5M "N2'" "H'2N" sing N N 72 A5M "C3'" "O3'" sing N N 73 A5M "C3'" "H3'" sing N N 74 A5M "O3'" "HO3'" sing N N 75 A5M OP3 HOP3 sing N N 76 C OP3 P sing N N 77 C OP3 HOP3 sing N N 78 C P OP1 doub N N 79 C P OP2 sing N N 80 C P "O5'" sing N N 81 C OP2 HOP2 sing N N 82 C "O5'" "C5'" sing N N 83 C "C5'" "C4'" sing N N 84 C "C5'" "H5'" sing N N 85 C "C5'" "H5''" sing N N 86 C "C4'" "O4'" sing N N 87 C "C4'" "C3'" sing N N 88 C "C4'" "H4'" sing N N 89 C "O4'" "C1'" sing N N 90 C "C3'" "O3'" sing N N 91 C "C3'" "C2'" sing N N 92 C "C3'" "H3'" sing N N 93 C "O3'" "HO3'" sing N N 94 C "C2'" "O2'" sing N N 95 C "C2'" "C1'" sing N N 96 C "C2'" "H2'" sing N N 97 C "O2'" "HO2'" sing N N 98 C "C1'" N1 sing N N 99 C "C1'" "H1'" sing N N 100 C N1 C2 sing N N 101 C N1 C6 sing N N 102 C C2 O2 doub N N 103 C C2 N3 sing N N 104 C N3 C4 doub N N 105 C C4 N4 sing N N 106 C C4 C5 sing N N 107 C N4 H41 sing N N 108 C N4 H42 sing N N 109 C C5 C6 doub N N 110 C C5 H5 sing N N 111 C C6 H6 sing N N 112 G OP3 P sing N N 113 G OP3 HOP3 sing N N 114 G P OP1 doub N N 115 G P OP2 sing N N 116 G P "O5'" sing N N 117 G OP2 HOP2 sing N N 118 G "O5'" "C5'" sing N N 119 G "C5'" "C4'" sing N N 120 G "C5'" "H5'" sing N N 121 G "C5'" "H5''" sing N N 122 G "C4'" "O4'" sing N N 123 G "C4'" "C3'" sing N N 124 G "C4'" "H4'" sing N N 125 G "O4'" "C1'" sing N N 126 G "C3'" "O3'" sing N N 127 G "C3'" "C2'" sing N N 128 G "C3'" "H3'" sing N N 129 G "O3'" "HO3'" sing N N 130 G "C2'" "O2'" sing N N 131 G "C2'" "C1'" sing N N 132 G "C2'" "H2'" sing N N 133 G "O2'" "HO2'" sing N N 134 G "C1'" N9 sing N N 135 G "C1'" "H1'" sing N N 136 G N9 C8 sing Y N 137 G N9 C4 sing Y N 138 G C8 N7 doub Y N 139 G C8 H8 sing N N 140 G N7 C5 sing Y N 141 G C5 C6 sing N N 142 G C5 C4 doub Y N 143 G C6 O6 doub N N 144 G C6 N1 sing N N 145 G N1 C2 sing N N 146 G N1 H1 sing N N 147 G C2 N2 sing N N 148 G C2 N3 doub N N 149 G N2 H21 sing N N 150 G N2 H22 sing N N 151 G N3 C4 sing N N 152 HOH O H1 sing N N 153 HOH O H2 sing N N 154 U OP3 P sing N N 155 U OP3 HOP3 sing N N 156 U P OP1 doub N N 157 U P OP2 sing N N 158 U P "O5'" sing N N 159 U OP2 HOP2 sing N N 160 U "O5'" "C5'" sing N N 161 U "C5'" "C4'" sing N N 162 U "C5'" "H5'" sing N N 163 U "C5'" "H5''" sing N N 164 U "C4'" "O4'" sing N N 165 U "C4'" "C3'" sing N N 166 U "C4'" "H4'" sing N N 167 U "O4'" "C1'" sing N N 168 U "C3'" "O3'" sing N N 169 U "C3'" "C2'" sing N N 170 U "C3'" "H3'" sing N N 171 U "O3'" "HO3'" sing N N 172 U "C2'" "O2'" sing N N 173 U "C2'" "C1'" sing N N 174 U "C2'" "H2'" sing N N 175 U "O2'" "HO2'" sing N N 176 U "C1'" N1 sing N N 177 U "C1'" "H1'" sing N N 178 U N1 C2 sing N N 179 U N1 C6 sing N N 180 U C2 O2 doub N N 181 U C2 N3 sing N N 182 U N3 C4 sing N N 183 U N3 H3 sing N N 184 U C4 O4 doub N N 185 U C4 C5 sing N N 186 U C5 C6 doub N N 187 U C5 H5 sing N N 188 U C6 H6 sing N N 189 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1Z79 'double helix' 1Z79 'a-form double helix' 1Z79 'mismatched base pair' # 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 G 1 1_555 B C 16 1_555 -0.435 -0.264 0.423 3.081 -6.337 1.602 1 B_G1:C16_A B 1 ? A 16 ? 19 1 1 A C 2 1_555 B G 15 1_555 0.494 -0.163 0.202 -2.146 -20.611 1.236 2 B_C2:G15_A B 2 ? A 15 ? 19 1 1 A A 3 1_555 B U 14 1_555 0.252 -0.157 0.501 2.089 -13.330 2.970 3 B_A3:U14_A B 3 ? A 14 ? 20 1 1 A G 4 1_555 B C 13 1_555 -0.296 -0.042 0.154 -5.772 -16.194 2.992 4 B_G4:C13_A B 4 ? A 13 ? 19 1 1 A A 5 1_555 B U 12 1_555 -0.238 -0.130 0.055 -12.912 -11.838 4.630 5 B_A5:U12_A B 5 ? A 12 ? 20 1 1 A A5M 6 1_555 B A 11 1_555 2.793 -0.323 0.402 -8.102 -12.560 12.465 6 B_A5M6:A11_A B 6 ? A 11 ? ? 1 1 A U 7 1_555 B A 10 1_555 0.155 -0.274 -0.012 7.743 -12.740 3.178 7 B_U7:A10_A B 7 ? A 10 ? 20 1 1 A U 8 1_555 B A 9 1_555 0.327 -0.259 0.033 4.992 -10.682 2.370 8 B_U8:A9_A B 8 ? A 9 ? 20 1 1 A A 9 1_555 B U 8 1_555 0.255 0.021 0.137 -3.258 -15.860 6.658 9 B_A9:U8_A B 9 ? A 8 ? 20 1 1 A A 10 1_555 B U 7 1_555 -0.322 -0.111 -0.160 -8.347 -15.361 3.091 10 B_A10:U7_A B 10 ? A 7 ? 20 1 1 A A 11 1_555 B A5M 6 1_555 -2.541 -0.234 0.322 -1.659 -25.194 12.991 11 B_A11:A5M6_A B 11 ? A 6 ? ? 1 1 A U 12 1_555 B A 5 1_555 0.319 -0.162 0.201 1.422 -15.728 10.455 12 B_U12:A5_A B 12 ? A 5 ? 20 1 1 A C 13 1_555 B G 4 1_555 0.638 -0.291 -0.063 5.529 -19.020 4.289 13 B_C13:G4_A B 13 ? A 4 ? 19 1 1 A U 14 1_555 B A 3 1_555 -0.345 -0.327 0.031 -2.698 -11.529 2.392 14 B_U14:A3_A B 14 ? A 3 ? 20 1 1 A G 15 1_555 B C 2 1_555 0.013 -0.235 -0.277 -5.450 -16.424 3.110 15 B_G15:C2_A B 15 ? A 2 ? 19 1 1 A C 16 1_555 B G 1 1_555 1.005 -0.032 -0.347 6.873 -13.775 -3.481 16 B_C16:G1_A B 16 ? A 1 ? 19 1 1 C G 1 1_555 C C 16 6_765 -0.532 -0.194 0.148 -2.117 -5.421 1.409 17 C_G1:C16_C C 1 ? C 16 ? 19 1 1 C C 2 1_555 C G 15 6_765 0.092 -0.058 -0.251 4.467 -13.707 1.567 18 C_C2:G15_C C 2 ? C 15 ? 19 1 1 C A 3 1_555 C U 14 6_765 0.077 -0.147 0.260 -1.688 -3.338 3.275 19 C_A3:U14_C C 3 ? C 14 ? 20 1 1 C G 4 1_555 C C 13 6_765 0.039 -0.056 0.175 2.516 -11.553 -0.492 20 C_G4:C13_C C 4 ? C 13 ? 19 1 1 C A 5 1_555 C U 12 6_765 -0.118 -0.277 -0.084 -5.433 -12.059 0.198 21 C_A5:U12_C C 5 ? C 12 ? 20 1 1 C A5M 6 1_555 C A 11 6_765 2.610 -0.500 0.147 -2.583 -15.619 3.523 22 C_A5M6:A11_C C 6 ? C 11 ? ? 1 1 C U 7 1_555 C A 10 6_765 -0.015 -0.226 0.044 0.928 -14.983 -0.672 23 C_U7:A10_C C 7 ? C 10 ? 20 1 1 C U 8 1_555 C A 9 6_765 -0.018 -0.130 -0.037 3.785 -14.596 3.721 24 C_U8:A9_C C 8 ? C 9 ? 20 1 1 C A 9 1_555 C U 8 6_765 0.018 -0.130 -0.037 -3.785 -14.596 3.721 25 C_A9:U8_C C 9 ? C 8 ? 20 1 1 C A 10 1_555 C U 7 6_765 0.015 -0.226 0.044 -0.928 -14.983 -0.672 26 C_A10:U7_C C 10 ? C 7 ? 20 1 1 C A 11 1_555 C A5M 6 6_765 -2.610 -0.500 0.147 2.583 -15.619 3.523 27 C_A11:A5M6_C C 11 ? C 6 ? ? 1 1 C U 12 1_555 C A 5 6_765 0.118 -0.277 -0.084 5.433 -12.059 0.198 28 C_U12:A5_C C 12 ? C 5 ? 20 1 1 C C 13 1_555 C G 4 6_765 -0.039 -0.056 0.175 -2.516 -11.553 -0.492 29 C_C13:G4_C C 13 ? C 4 ? 19 1 1 C U 14 1_555 C A 3 6_765 -0.077 -0.147 0.260 1.688 -3.338 3.275 30 C_U14:A3_C C 14 ? C 3 ? 20 1 1 C G 15 1_555 C C 2 6_765 -0.092 -0.058 -0.251 -4.467 -13.707 1.567 31 C_G15:C2_C C 15 ? C 2 ? 19 1 1 C C 16 1_555 C G 1 6_765 0.532 -0.194 0.148 2.117 -5.421 1.409 32 C_C16:G1_C C 16 ? C 1 ? 19 1 # 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 G 1 1_555 B C 16 1_555 A C 2 1_555 B G 15 1_555 -0.482 -1.225 3.338 0.583 5.799 37.610 -2.611 0.813 3.114 8.930 -0.898 38.042 1 BB_G1C2:G15C16_AA B 1 ? A 16 ? B 2 ? A 15 ? 1 A C 2 1_555 B G 15 1_555 A A 3 1_555 B U 14 1_555 0.040 -1.426 2.963 -1.424 11.466 33.794 -3.723 -0.238 2.366 19.046 2.365 35.660 2 BB_C2A3:U14G15_AA B 2 ? A 15 ? B 3 ? A 14 ? 1 A A 3 1_555 B U 14 1_555 A G 4 1_555 B C 13 1_555 0.374 -1.523 3.319 2.364 13.514 28.760 -5.058 -0.285 2.402 25.459 -4.453 31.802 3 BB_A3G4:C13U14_AA B 3 ? A 14 ? B 4 ? A 13 ? 1 A G 4 1_555 B C 13 1_555 A A 5 1_555 B U 12 1_555 0.589 -1.700 3.287 4.323 11.298 31.466 -4.654 -0.360 2.596 19.934 -7.627 33.657 4 BB_G4A5:U12C13_AA B 4 ? A 13 ? B 5 ? A 12 ? 1 A A 5 1_555 B U 12 1_555 A A5M 6 1_555 B A 11 1_555 0.340 -0.782 3.259 1.493 3.933 44.611 -1.380 -0.312 3.192 5.168 -1.962 44.799 5 BB_A5A5M6:A11U12_AA B 5 ? A 12 ? B 6 ? A 11 ? 1 A A5M 6 1_555 B A 11 1_555 A U 7 1_555 B A 10 1_555 -0.484 -2.156 2.576 3.961 5.630 13.997 -10.733 3.746 1.417 21.488 -15.118 15.591 6 BB_A5M6U7:A10A11_AA B 6 ? A 11 ? B 7 ? A 10 ? 1 A U 7 1_555 B A 10 1_555 A U 8 1_555 B A 9 1_555 -0.006 -1.468 3.335 -1.890 5.138 36.032 -3.053 -0.250 3.099 8.247 3.034 36.431 7 BB_U7U8:A9A10_AA B 7 ? A 10 ? B 8 ? A 9 ? 1 A U 8 1_555 B A 9 1_555 A A 9 1_555 B U 8 1_555 0.089 -1.566 3.161 2.077 14.913 30.987 -4.667 0.130 2.200 26.072 -3.631 34.371 8 BB_U8A9:U8A9_AA B 8 ? A 9 ? B 9 ? A 8 ? 1 A A 9 1_555 B U 8 1_555 A A 10 1_555 B U 7 1_555 -0.590 -1.150 3.233 2.615 15.499 30.725 -4.128 1.366 2.346 27.137 -4.578 34.426 9 BB_A9A10:U7U8_AA B 9 ? A 8 ? B 10 ? A 7 ? 1 A A 10 1_555 B U 7 1_555 A A 11 1_555 B A5M 6 1_555 2.112 -1.682 3.066 1.469 11.347 17.000 -8.826 -5.415 1.776 33.847 -4.382 20.468 10 BB_A10A11:A5M6U7_AA B 10 ? A 7 ? B 11 ? A 6 ? 1 A A 11 1_555 B A5M 6 1_555 A U 12 1_555 B A 5 1_555 -0.168 -0.959 3.158 -2.278 8.560 40.202 -2.236 0.007 2.907 12.273 3.266 41.127 11 BB_A11U12:A5A5M6_AA B 11 ? A 6 ? B 12 ? A 5 ? 1 A U 12 1_555 B A 5 1_555 A C 13 1_555 B G 4 1_555 -0.710 -1.683 3.056 0.064 6.918 32.930 -3.906 1.237 2.656 12.038 -0.111 33.629 12 BB_U12C13:G4A5_AA B 12 ? A 5 ? B 13 ? A 4 ? 1 A C 13 1_555 B G 4 1_555 A U 14 1_555 B A 3 1_555 -0.747 -0.987 3.349 -2.503 12.174 27.361 -4.347 0.942 2.728 24.215 4.979 30.003 13 BB_C13U14:A3G4_AA B 13 ? A 4 ? B 14 ? A 3 ? 1 A U 14 1_555 B A 3 1_555 A G 15 1_555 B C 2 1_555 0.389 -1.139 3.380 2.979 7.723 31.602 -3.367 -0.176 3.048 13.886 -5.357 32.641 14 BB_U14G15:C2A3_AA B 14 ? A 3 ? B 15 ? A 2 ? 1 A G 15 1_555 B C 2 1_555 A C 16 1_555 B G 1 1_555 0.274 -1.217 2.908 2.733 1.927 37.699 -2.095 -0.113 2.857 2.975 -4.220 37.841 15 BB_G15C16:G1C2_AA B 15 ? A 2 ? B 16 ? A 1 ? 1 C G 1 1_555 C C 16 6_765 C C 2 1_555 C G 15 6_765 -0.373 -1.553 3.122 2.626 3.230 34.232 -3.086 1.008 2.932 5.462 -4.441 34.476 16 CC_G1C2:G15C16_CC C 1 ? C 16 ? C 2 ? C 15 ? 1 C C 2 1_555 C G 15 6_765 C A 3 1_555 C U 14 6_765 0.309 -1.588 3.349 -3.266 9.860 33.597 -4.038 -0.979 2.747 16.573 5.490 35.122 17 CC_C2A3:U14G15_CC C 2 ? C 15 ? C 3 ? C 14 ? 1 C A 3 1_555 C U 14 6_765 C G 4 1_555 C C 13 6_765 -0.242 -1.603 3.069 1.164 6.876 29.336 -4.321 0.675 2.623 13.341 -2.258 30.136 18 CC_A3G4:C13U14_CC C 3 ? C 14 ? C 4 ? C 13 ? 1 C G 4 1_555 C C 13 6_765 C A 5 1_555 C U 12 6_765 -0.234 -1.905 3.322 0.762 16.368 33.274 -4.961 0.460 2.175 26.668 -1.241 36.987 19 CC_G4A5:U12C13_CC C 4 ? C 13 ? C 5 ? C 12 ? 1 C A 5 1_555 C U 12 6_765 C A5M 6 1_555 C A 11 6_765 0.087 -1.075 3.264 1.196 9.188 41.748 -2.366 -0.003 2.975 12.705 -1.654 42.719 20 CC_A5A5M6:A11U12_CC C 5 ? C 12 ? C 6 ? C 11 ? 1 C A5M 6 1_555 C A 11 6_765 C U 7 1_555 C A 10 6_765 -0.137 -1.812 2.836 1.991 10.057 19.720 -7.501 0.909 1.697 27.122 -5.368 22.202 21 CC_A5M6U7:A10A11_CC C 6 ? C 11 ? C 7 ? C 10 ? 1 C U 7 1_555 C A 10 6_765 C U 8 1_555 C A 9 6_765 0.287 -1.359 3.147 0.531 7.708 31.563 -3.667 -0.427 2.751 13.911 -0.958 32.471 22 CC_U7U8:A9A10_CC C 7 ? C 10 ? C 8 ? C 9 ? 1 C U 8 1_555 C A 9 6_765 C A 9 1_555 C U 8 6_765 0.000 -1.177 3.305 0.000 16.747 34.673 -3.746 0.000 2.497 26.288 0.000 38.394 23 CC_U8A9:U8A9_CC C 8 ? C 9 ? C 9 ? C 8 ? 1 C A 9 1_555 C U 8 6_765 C A 10 1_555 C U 7 6_765 -0.287 -1.359 3.147 -0.531 7.708 31.563 -3.667 0.427 2.751 13.911 0.958 32.471 24 CC_A9A10:U7U8_CC C 9 ? C 8 ? C 10 ? C 7 ? 1 C A 10 1_555 C U 7 6_765 C A 11 1_555 C A5M 6 6_765 0.137 -1.812 2.836 -1.991 10.057 19.720 -7.501 -0.909 1.697 27.122 5.368 22.202 25 CC_A10A11:A5M6U7_CC C 10 ? C 7 ? C 11 ? C 6 ? 1 C A 11 1_555 C A5M 6 6_765 C U 12 1_555 C A 5 6_765 -0.087 -1.075 3.264 -1.196 9.188 41.748 -2.366 0.003 2.975 12.705 1.654 42.719 26 CC_A11U12:A5A5M6_CC C 11 ? C 6 ? C 12 ? C 5 ? 1 C U 12 1_555 C A 5 6_765 C C 13 1_555 C G 4 6_765 0.234 -1.905 3.322 -0.762 16.368 33.274 -4.961 -0.460 2.175 26.668 1.241 36.987 27 CC_U12C13:G4A5_CC C 12 ? C 5 ? C 13 ? C 4 ? 1 C C 13 1_555 C G 4 6_765 C U 14 1_555 C A 3 6_765 0.242 -1.603 3.069 -1.164 6.876 29.336 -4.321 -0.675 2.623 13.340 2.258 30.136 28 CC_C13U14:A3G4_CC C 13 ? C 4 ? C 14 ? C 3 ? 1 C U 14 1_555 C A 3 6_765 C G 15 1_555 C C 2 6_765 -0.309 -1.588 3.349 3.266 9.860 33.597 -4.038 0.979 2.747 16.573 -5.490 35.122 29 CC_U14G15:C2A3_CC C 14 ? C 3 ? C 15 ? C 2 ? 1 C G 15 1_555 C C 2 6_765 C C 16 1_555 C G 1 6_765 0.373 -1.553 3.122 -2.626 3.230 34.232 -3.086 -1.008 2.932 5.462 4.441 34.476 30 CC_G15C16:G1C2_CC C 15 ? C 2 ? C 16 ? C 1 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 water HOH # _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 PDB _pdbx_initial_refinement_model.accession_code 1YRM _pdbx_initial_refinement_model.details ? #