data_3I2S # _entry.id 3I2S # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.378 _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 3I2S pdb_00003i2s 10.2210/pdb3i2s/pdb NDB NA0053 ? ? RCSB RCSB053891 ? ? WWPDB D_1000053891 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3I2P ;Crystal structure of the hairpin ribozyme product-mimic with 5'-deoxy-5'-fluoroguanosine ; unspecified PDB 3I2Q ;Crystal structure of the hairpin ribozyme with 2'OMe substrate strand and N1-deazaadenosine at position A9 ; unspecified PDB 3I2R ;Crystal structure of the hairpin ribozyme with a 2',5'-linked substrate with N1-deazaadenosine at position A9 ; unspecified PDB 3I2U ;Crystal structure of the haiprin ribozyme with a 2',5'-linked substrate and N1-deazaadenosine at position A10 ; unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3I2S _pdbx_database_status.recvd_initial_deposition_date 2009-06-29 _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 'Wedekind, J.E.' 1 'Spitale, R.C.' 2 'Krucinska, J.' 3 # _citation.id primary _citation.title ;Single-atom imino substitutions at A9 and A10 reveal distinct effects on the fold and function of the hairpin ribozyme catalytic core. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 48 _citation.page_first 7777 _citation.page_last 7779 _citation.year 2009 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19634899 _citation.pdbx_database_id_DOI 10.1021/bi9011622 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Spitale, R.C.' 1 ? primary 'Volpini, R.' 2 ? primary 'Mungillo, M.V.' 3 ? primary 'Krucinska, J.' 4 ? primary 'Cristalli, G.' 5 ? primary 'Wedekind, J.E.' 6 ? # _cell.entry_id 3I2S _cell.length_a 92.830 _cell.length_b 92.830 _cell.length_c 132.690 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3I2S _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _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 "5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*GP*U)-3'" 4372.663 1 ? ? ? 'Hairpin ribozyme' 2 polymer syn 'DNA/RNA (30-MER)' 9762.001 1 ? ? ? 'Hairpin ribozyme' 3 polymer syn "5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'" 5991.568 1 ? ? ? 'Hairpin ribozyme' 4 non-polymer syn 'SULFATE ION' 96.063 1 ? ? ? ? 5 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 2 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no yes 'UCCC(A2M)GUCCACCGU' UCCCAGUCCACCGU A ? 2 'polydeoxyribonucleotide/polyribonucleotide hybrid' no yes 'CGGUGAGA(1DP)GGG(S9L)GGCAGAGAAACACACGA' CGGUGAGAXGGGXGGCAGAGAAACACACGA B ? 3 polyribonucleotide no no UCGUGGUACAUUACCUGCC UCGUGGUACAUUACCUGCC C ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 C n 1 3 C n 1 4 C n 1 5 A2M n 1 6 G n 1 7 U n 1 8 C n 1 9 C n 1 10 A n 1 11 C n 1 12 C n 1 13 G n 1 14 U n 2 1 C n 2 2 G n 2 3 G n 2 4 U n 2 5 G n 2 6 A n 2 7 G n 2 8 A n 2 9 1DP n 2 10 G n 2 11 G n 2 12 G n 2 13 S9L n 2 14 G n 2 15 G n 2 16 C n 2 17 A n 2 18 G n 2 19 A n 2 20 G n 2 21 A n 2 22 A n 2 23 A n 2 24 C n 2 25 A n 2 26 C n 2 27 A n 2 28 C n 2 29 G n 2 30 A n 3 1 U n 3 2 C n 3 3 G n 3 4 U n 3 5 G n 3 6 G n 3 7 U n 3 8 A n 3 9 C n 3 10 A n 3 11 U n 3 12 U n 3 13 A n 3 14 C n 3 15 C n 3 16 U n 3 17 G n 3 18 C n 3 19 C n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? ? ? ? 'The RNA was synthesized by Dharmacon Inc., following the tobacco ringspot virus sequence' 2 1 sample ? ? ? ? ? 'The RNA was synthesized by Dharmacon Inc., following the tobacco ringspot virus sequence' 3 1 sample ? ? ? ? ? 'The RNA was synthesized by Dharmacon Inc., following the tobacco ringspot virus sequence' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 3I2S 3I2S 1 -5 UCCCCGUCCACCGU ? 2 PDB 3I2S 3I2S 2 2 CGGUGAGAAGGGXGGCAGAGAAACACACGA ? 3 PDB 3I2S 3I2S 3 31 UCGUGGUACAUUACCUGCC ? # 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 3I2S A 1 ? 14 ? 3I2S -5 ? 9 ? -5 9 2 2 3I2S B 1 ? 30 ? 3I2S 2 ? 31 ? 2 31 3 3 3I2S C 1 ? 19 ? 3I2S 31 ? 49 ? 31 49 # 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 1DP 'RNA linking' . "N1-deaza-adenosine-5'-monophosphate" '3-(5-O-phosphono-beta-D-ribofuranosyl)-3H-imidazo[4,5-b]pyridin-7-amine' 'C11 H15 N4 O7 P' 346.233 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 A2M 'RNA linking' n ;2'-O-methyladenosine 5'-(dihydrogen phosphate) ; ? 'C11 H16 N5 O7 P' 361.248 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 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 S9L non-polymer . '2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL DIHYDROGEN PHOSPHATE' ? 'C6 H15 O7 P' 230.153 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 3I2S _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 4.10 _exptl_crystal.density_percent_sol 70.00 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293.15 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;Well solutions contained 20.5% w/v PEG 2000 MME, 0.10 M Na cacodylate pH 6.5 or 7.0, 0.25 M Li2SO4, 2.5 mM Co(NH3)6Cl3 and 2 mM Spermidine-HCl. Crystals grew as hexagonal rods or plates and reached a size of 0.3 mm x 0.2 mm x 0.2 mm in approximately 3 weeks, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K ; _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 'PEG 2000 MME' ? ? ? 1 2 1 'Na cacodylate' ? ? ? 1 3 1 Li2SO4 ? ? ? 1 4 1 'Co(NH3)6Cl3' ? ? ? 1 5 1 Spermidine-HCl ? ? ? 1 6 2 'PEG 2000 MME' ? ? ? 1 7 2 'Na cacodylate' ? ? ? 1 8 2 Li2SO4 ? ? ? 1 9 2 'Co(NH3)6Cl3' ? ? ? 1 10 2 Spermidine-HCl ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2009-01-29 _diffrn_detector.details 'Vertical focusing mirror, single crystal Si(111) bent monochromator (horizontal focusing)' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111) single crystal' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9700 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL7-1' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL7-1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9700 # _reflns.entry_id 3I2S _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.00 _reflns.d_resolution_high 2.75 _reflns.number_obs 9249 _reflns.number_all ? _reflns.percent_possible_obs 99.3 _reflns.pdbx_Rmerge_I_obs 0.068 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 52.2 _reflns.B_iso_Wilson_estimate 78.8 _reflns.pdbx_redundancy 7.1 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.75 _reflns_shell.d_res_low 2.85 _reflns_shell.percent_possible_all 100.00 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.499 _reflns_shell.meanI_over_sigI_obs 3.5 _reflns_shell.pdbx_redundancy 7.1 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1853 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3I2S _refine.ls_number_reflns_obs 9249 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 57011.40 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 30.67 _refine.ls_d_res_high 2.75 _refine.ls_percent_reflns_obs 99.6 _refine.ls_R_factor_obs 0.239 _refine.ls_R_factor_all 0.239 _refine.ls_R_factor_R_work 0.239 _refine.ls_R_factor_R_free 0.261 _refine.ls_R_factor_R_free_error 0.010 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 7.7 _refine.ls_number_reflns_R_free 708 _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 72.4 _refine.aniso_B[1][1] -12.02 _refine.aniso_B[2][2] -12.02 _refine.aniso_B[3][3] 24.05 _refine.aniso_B[1][2] 0.00 _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 0.3 _refine.solvent_model_param_bsol 36.214 _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 'BULK SOLVENT MODEL USED' _refine.pdbx_starting_model 'PDB entry 2OUE' _refine.pdbx_method_to_determine_struct 'FOURIER SYNTHESIS' _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 ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 3I2S _refine_analyze.Luzzati_coordinate_error_obs 0.46 _refine_analyze.Luzzati_sigma_a_obs 0.57 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.44 _refine_analyze.Luzzati_sigma_a_free 0.65 _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_Luzzati_d_res_high_obs ? _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 1311 _refine_hist.pdbx_number_atoms_ligand 19 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1330 _refine_hist.d_res_high 2.75 _refine_hist.d_res_low 30.67 # 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 0.006 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.6 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 17.7 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 2.56 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.75 _refine_ls_shell.d_res_low 2.92 _refine_ls_shell.number_reflns_R_work 1383 _refine_ls_shell.R_factor_R_work 0.492 _refine_ls_shell.percent_reflns_obs 100.0 _refine_ls_shell.R_factor_R_free 0.486 _refine_ls_shell.R_factor_R_free_error 0.047 _refine_ls_shell.percent_reflns_R_free 7.3 _refine_ls_shell.number_reflns_R_free 109 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 dna-rnaATT protein.top 'X-RAY DIFFRACTION' 2 cobalt.par ? 'X-RAY DIFFRACTION' 3 to ? 'X-RAY DIFFRACTION' 4 to ? 'X-RAY DIFFRACTION' 5 to ? 'X-RAY DIFFRACTION' # _struct.entry_id 3I2S _struct.title ;Crystal structure of the hairpin ribozyme with a 2'OMe substrate and N1-deazaadenosine at position A10 ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3I2S _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'hairpin ribozyme, N1-deazaadenosine, RNA' # 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 2 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 5 ? # _struct_biol.id 1 _struct_biol.details 'THE BIOLOGICAL UNIT IS THE SAME AS AN ASYMMETRIC UNIT' # 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 C 4 "O3'" ? ? ? 1_555 A A2M 5 P ? ? A C -2 A A2M -1 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale2 covale one ? A A2M 5 "O3'" ? ? ? 1_555 A G 6 P ? ? A A2M -1 A G 1 1_555 ? ? ? ? ? ? ? 1.619 ? ? covale3 covale both ? B A 8 "O3'" ? ? ? 1_555 B 1DP 9 P ? ? B A 9 B 1DP 10 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale4 covale both ? B 1DP 9 "O3'" ? ? ? 1_555 B G 10 P ? ? B 1DP 10 B G 11 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale5 covale both ? B G 12 "O3'" ? ? ? 1_555 B S9L 13 P ? ? B G 13 B S9L 14 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale6 covale both ? B S9L 13 "O3'" ? ? ? 1_555 B G 14 P ? ? B S9L 14 B G 15 1_555 ? ? ? ? ? ? ? 1.608 ? ? hydrog1 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 12 N1 ? ? A C -4 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 12 O6 ? ? A C -4 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 12 N2 ? ? A C -4 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 11 N1 ? ? A C -3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 11 O6 ? ? A C -3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 11 N2 ? ? A C -3 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 10 N1 ? ? A C -2 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 10 O6 ? ? A C -2 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 10 N2 ? ? A C -2 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A A2M 5 N3 ? ? ? 1_555 B A 8 N6 ? ? A A2M -1 B A 9 1_555 ? ? ? ? ? ? 'A2M-A MISPAIR' ? ? ? hydrog11 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 24 N3 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 24 O2 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 24 N4 ? ? A G 1 B C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 7 O4 ? ? ? 1_555 B G 7 N2 ? ? A U 2 B G 8 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog15 hydrog ? ? A C 8 N4 ? ? ? 1_555 B A 6 N1 ? ? A C 3 B A 7 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog16 hydrog ? ? A C 9 N3 ? ? ? 1_555 B G 5 N1 ? ? A C 4 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 9 N4 ? ? ? 1_555 B G 5 O6 ? ? A C 4 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 9 O2 ? ? ? 1_555 B G 5 N2 ? ? A C 4 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 4 N3 ? ? A A 5 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 4 O4 ? ? A A 5 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 6 B G 4 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog22 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 13 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 8 B C 2 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog26 hydrog ? ? B G 14 N1 ? ? ? 1_555 C C 19 N3 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? B G 14 N2 ? ? ? 1_555 C C 19 O2 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? B G 14 O6 ? ? ? 1_555 C C 19 N4 ? ? B G 15 C C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B G 15 N1 ? ? ? 1_555 C C 18 N3 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B G 15 N2 ? ? ? 1_555 C C 18 O2 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B G 15 O6 ? ? ? 1_555 C C 18 N4 ? ? B G 16 C C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B C 16 N3 ? ? ? 1_555 C G 17 N1 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B C 16 N4 ? ? ? 1_555 C G 17 O6 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B C 16 O2 ? ? ? 1_555 C G 17 N2 ? ? B C 17 C G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B A 17 N1 ? ? ? 1_555 C U 16 N3 ? ? B A 18 C U 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B A 17 N6 ? ? ? 1_555 C U 16 O4 ? ? B A 18 C U 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B G 18 N1 ? ? ? 1_555 C C 15 N3 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B G 18 N2 ? ? ? 1_555 C C 15 O2 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B G 18 O6 ? ? ? 1_555 C C 15 N4 ? ? B G 19 C C 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B A 19 N1 ? ? ? 1_555 C C 14 N4 ? ? B A 20 C C 44 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog41 hydrog ? ? B G 20 N2 ? ? ? 1_555 C A 13 N7 ? ? B G 21 C A 43 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog42 hydrog ? ? B G 20 N3 ? ? ? 1_555 C A 13 N6 ? ? B G 21 C A 43 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog43 hydrog ? ? B A 21 N6 ? ? ? 1_555 C U 11 O2 ? ? B A 22 C U 41 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog44 hydrog ? ? B A 21 N7 ? ? ? 1_555 C U 11 N3 ? ? B A 22 C U 41 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog45 hydrog ? ? B A 22 N6 ? ? ? 1_555 C A 10 N1 ? ? B A 23 C A 40 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog46 hydrog ? ? B A 22 N7 ? ? ? 1_555 C A 10 N6 ? ? B A 23 C A 40 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog47 hydrog ? ? B A 23 N6 ? ? ? 1_555 C A 8 N7 ? ? B A 24 C A 38 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog48 hydrog ? ? B A 25 N1 ? ? ? 1_555 C G 6 N1 ? ? B A 26 C G 36 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog49 hydrog ? ? B A 25 N6 ? ? ? 1_555 C G 6 O6 ? ? B A 26 C G 36 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog50 hydrog ? ? B C 26 N3 ? ? ? 1_555 C G 5 N1 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? B C 26 N4 ? ? ? 1_555 C G 5 O6 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? B C 26 O2 ? ? ? 1_555 C G 5 N2 ? ? B C 27 C G 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? B A 27 N1 ? ? ? 1_555 C U 4 N3 ? ? B A 28 C U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? B A 27 N6 ? ? ? 1_555 C U 4 O4 ? ? B A 28 C U 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? B C 28 N3 ? ? ? 1_555 C G 3 N1 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? B C 28 N4 ? ? ? 1_555 C G 3 O6 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? B C 28 O2 ? ? ? 1_555 C G 3 N2 ? ? B C 29 C G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? B G 29 N1 ? ? ? 1_555 C C 2 N3 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? B G 29 N2 ? ? ? 1_555 C C 2 O2 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? B G 29 O6 ? ? ? 1_555 C C 2 N4 ? ? B G 30 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? B A 30 N1 ? ? ? 1_555 C U 1 N3 ? ? B A 31 C U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? B A 30 N6 ? ? ? 1_555 C U 1 O4 ? ? B A 31 C U 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software B NCO 101 ? 4 'BINDING SITE FOR RESIDUE NCO B 101' AC2 Software B NCO 102 ? 7 'BINDING SITE FOR RESIDUE NCO B 102' AC3 Software A SO4 103 ? 3 'BINDING SITE FOR RESIDUE SO4 A 103' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 A B 19 ? A B 20 . ? 1_555 ? 2 AC1 4 G B 20 ? G B 21 . ? 1_555 ? 3 AC1 4 A C 10 ? A C 40 . ? 1_555 ? 4 AC1 4 U C 11 ? U C 41 . ? 1_555 ? 5 AC2 7 U A 1 ? U A -5 . ? 10_665 ? 6 AC2 7 U A 1 ? U A -5 . ? 1_555 ? 7 AC2 7 C A 3 ? C A -3 . ? 1_555 ? 8 AC2 7 C A 2 ? C A -4 . ? 1_555 ? 9 AC2 7 SO4 D . ? SO4 A 103 . ? 1_555 ? 10 AC2 7 G B 11 ? G B 12 . ? 1_555 ? 11 AC2 7 G B 12 ? G B 13 . ? 1_555 ? 12 AC3 3 U A 1 ? U A -5 . ? 1_555 ? 13 AC3 3 C A 2 ? C A -4 . ? 1_555 ? 14 AC3 3 NCO F . ? NCO B 102 . ? 1_555 ? # _database_PDB_matrix.entry_id 3I2S _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 3I2S _atom_sites.fract_transf_matrix[1][1] 0.010772 _atom_sites.fract_transf_matrix[1][2] 0.006219 _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] 0.012439 _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] 0.007536 _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 CO N O P S # 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 U 1 -5 -5 U U A . n A 1 2 C 2 -4 -4 C C A . n A 1 3 C 3 -3 -3 C C A . n A 1 4 C 4 -2 -2 C C A . n A 1 5 A2M 5 -1 -1 A2M A2M A . n A 1 6 G 6 1 1 G G A . n A 1 7 U 7 2 2 U U A . n A 1 8 C 8 3 3 C C A . n A 1 9 C 9 4 4 C C A . n A 1 10 A 10 5 5 A A A . n A 1 11 C 11 6 6 C C A . n A 1 12 C 12 7 7 C C A . n A 1 13 G 13 8 8 G G A . n A 1 14 U 14 9 ? ? ? A . n B 2 1 C 1 2 2 C C B . n B 2 2 G 2 3 3 G G B . n B 2 3 G 3 4 4 G G B . n B 2 4 U 4 5 5 U U B . n B 2 5 G 5 6 6 G G B . n B 2 6 A 6 7 7 A A B . n B 2 7 G 7 8 8 G G B . n B 2 8 A 8 9 9 A A B . n B 2 9 1DP 9 10 10 1DP A B . n B 2 10 G 10 11 11 G G B . n B 2 11 G 11 12 12 G G B . n B 2 12 G 12 13 13 G G B . n B 2 13 S9L 13 14 14 S9L S9L B . n B 2 14 G 14 15 15 G G B . n B 2 15 G 15 16 16 G G B . n B 2 16 C 16 17 17 C C B . n B 2 17 A 17 18 18 A A B . n B 2 18 G 18 19 19 G G B . n B 2 19 A 19 20 20 A A B . n B 2 20 G 20 21 21 G G B . n B 2 21 A 21 22 22 A A B . n B 2 22 A 22 23 23 A A B . n B 2 23 A 23 24 24 A A B . n B 2 24 C 24 25 25 C C B . n B 2 25 A 25 26 26 A A B . n B 2 26 C 26 27 27 C C B . n B 2 27 A 27 28 28 A A B . n B 2 28 C 28 29 29 C C B . n B 2 29 G 29 30 30 G G B . n B 2 30 A 30 31 31 A A B . n C 3 1 U 1 31 31 U U C . n C 3 2 C 2 32 32 C C C . n C 3 3 G 3 33 33 G G C . n C 3 4 U 4 34 34 U U C . n C 3 5 G 5 35 35 G G C . n C 3 6 G 6 36 36 G G C . n C 3 7 U 7 37 37 U U C . n C 3 8 A 8 38 38 A A C . n C 3 9 C 9 39 39 C C C . n C 3 10 A 10 40 40 A A C . n C 3 11 U 11 41 41 U U C . n C 3 12 U 12 42 42 U U C . n C 3 13 A 13 43 43 A A C . n C 3 14 C 14 44 44 C C C . n C 3 15 C 15 45 45 C C C . n C 3 16 U 16 46 46 U U C . n C 3 17 G 17 47 47 G G C . n C 3 18 C 18 48 48 C C C . n C 3 19 C 19 49 49 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 4 SO4 1 103 1 SO4 SO4 A . E 5 NCO 1 101 1 NCO NCO B . F 5 NCO 1 102 2 NCO NCO B . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id A2M _pdbx_struct_mod_residue.label_seq_id 5 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id A2M _pdbx_struct_mod_residue.auth_seq_id -1 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id A _pdbx_struct_mod_residue.details "2'-O-METHYL-ADENOSINE-5'-MONOPHOSPHATE" # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2870 ? 1 MORE -3.2 ? 1 'SSA (A^2)' 11240 ? # _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 # 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 2009-11-03 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2023-09-06 # _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' 'Non-polymer description' 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Derived calculations' 6 3 '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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 'Structure model' struct_conn 6 3 'Structure model' struct_ref_seq 7 3 'Structure model' struct_site # 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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 3 'Structure model' '_struct_ref_seq.db_align_end' 5 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 CNS refinement . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 CNS phasing . ? 5 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O4 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 U _pdbx_validate_close_contact.auth_seq_id_1 -5 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 B _pdbx_validate_close_contact.auth_atom_id_2 N5 _pdbx_validate_close_contact.auth_asym_id_2 B _pdbx_validate_close_contact.auth_comp_id_2 NCO _pdbx_validate_close_contact.auth_seq_id_2 102 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.14 # 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 "O5'" A U -5 ? B "C5'" A U -5 ? B "C4'" A U -5 ? B 103.69 109.40 -5.71 0.80 N 2 1 "O3'" A U -5 ? A P A C -4 ? ? OP2 A C -4 ? ? 123.95 110.50 13.45 1.10 Y 3 1 "O3'" A U -5 ? B P A C -4 ? ? OP2 A C -4 ? ? 91.91 105.20 -13.29 2.20 Y 4 1 "O3'" A U -5 ? B P A C -4 ? ? OP1 A C -4 ? ? 124.22 110.50 13.72 1.10 Y 5 1 "C2'" A C -4 ? ? "C3'" A C -4 ? ? "O3'" A C -4 ? ? 127.62 113.70 13.92 1.60 N 6 1 "C2'" C G 36 ? ? "C3'" C G 36 ? ? "O3'" C G 36 ? ? 125.30 113.70 11.60 1.60 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 U A -5 ? A 0.138 'SIDE CHAIN' 2 1 G C 36 ? ? 0.062 'SIDE CHAIN' # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id U _pdbx_unobs_or_zero_occ_residues.auth_seq_id 9 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id A _pdbx_unobs_or_zero_occ_residues.label_comp_id U _pdbx_unobs_or_zero_occ_residues.label_seq_id 14 # 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 1DP O3P O N N 1 1DP P P N N 2 1DP O1P O N N 3 1DP O2P O N N 4 1DP "O5'" O N N 5 1DP "C5'" C N N 6 1DP "C4'" C N R 7 1DP "O4'" O N N 8 1DP "C1'" C N R 9 1DP N9 N Y N 10 1DP C4 C Y N 11 1DP N3 N Y N 12 1DP C2 C Y N 13 1DP C1 C Y N 14 1DP C6 C Y N 15 1DP N6 N N N 16 1DP C5 C Y N 17 1DP N7 N Y N 18 1DP C8 C Y N 19 1DP "C2'" C N R 20 1DP "O2'" O N N 21 1DP "C3'" C N S 22 1DP "O3'" O N N 23 1DP HO3P H N N 24 1DP HO2P H N N 25 1DP "H5'" H N N 26 1DP "H5'A" H N N 27 1DP "H4'" H N N 28 1DP "H1'" H N N 29 1DP H2 H N N 30 1DP H1 H N N 31 1DP HN6 H N N 32 1DP HN6A H N N 33 1DP H8 H N N 34 1DP "H2'" H N N 35 1DP "HO2'" H N N 36 1DP "H3'" H N N 37 1DP "HO3'" H N N 38 A OP3 O N N 39 A P P N N 40 A OP1 O N N 41 A OP2 O N N 42 A "O5'" O N N 43 A "C5'" C N N 44 A "C4'" C N R 45 A "O4'" O N N 46 A "C3'" C N S 47 A "O3'" O N N 48 A "C2'" C N R 49 A "O2'" O N N 50 A "C1'" C N R 51 A N9 N Y N 52 A C8 C Y N 53 A N7 N Y N 54 A C5 C Y N 55 A C6 C Y N 56 A N6 N N N 57 A N1 N Y N 58 A C2 C Y N 59 A N3 N Y N 60 A C4 C Y N 61 A HOP3 H N N 62 A HOP2 H N N 63 A "H5'" H N N 64 A "H5''" H N N 65 A "H4'" H N N 66 A "H3'" H N N 67 A "HO3'" H N N 68 A "H2'" H N N 69 A "HO2'" H N N 70 A "H1'" H N N 71 A H8 H N N 72 A H61 H N N 73 A H62 H N N 74 A H2 H N N 75 A2M P P N N 76 A2M OP1 O N N 77 A2M OP3 O N N 78 A2M "O5'" O N N 79 A2M "C5'" C N N 80 A2M "C4'" C N R 81 A2M "O4'" O N N 82 A2M "C3'" C N R 83 A2M "O3'" O N N 84 A2M "C2'" C N R 85 A2M "O2'" O N N 86 A2M "C1'" C N R 87 A2M "CM'" C N N 88 A2M N9 N Y N 89 A2M C8 C Y N 90 A2M N7 N Y N 91 A2M C5 C Y N 92 A2M C6 C Y N 93 A2M N6 N N N 94 A2M N1 N Y N 95 A2M C2 C Y N 96 A2M N3 N Y N 97 A2M C4 C Y N 98 A2M HOP3 H N N 99 A2M "H5'" H N N 100 A2M "H5''" H N N 101 A2M "H4'" H N N 102 A2M "H3'" H N N 103 A2M "HO3'" H N N 104 A2M "H2'" H N N 105 A2M "H1'" H N N 106 A2M "HM'1" H N N 107 A2M "HM'2" H N N 108 A2M "HM'3" H N N 109 A2M H8 H N N 110 A2M H61 H N N 111 A2M H62 H N N 112 A2M H2 H N N 113 A2M OP2 O N N 114 A2M HOP2 H N N 115 C OP3 O N N 116 C P P N N 117 C OP1 O N N 118 C OP2 O N N 119 C "O5'" O N N 120 C "C5'" C N N 121 C "C4'" C N R 122 C "O4'" O N N 123 C "C3'" C N S 124 C "O3'" O N N 125 C "C2'" C N R 126 C "O2'" O N N 127 C "C1'" C N R 128 C N1 N N N 129 C C2 C N N 130 C O2 O N N 131 C N3 N N N 132 C C4 C N N 133 C N4 N N N 134 C C5 C N N 135 C C6 C N N 136 C HOP3 H N N 137 C HOP2 H N N 138 C "H5'" H N N 139 C "H5''" H N N 140 C "H4'" H N N 141 C "H3'" H N N 142 C "HO3'" H N N 143 C "H2'" H N N 144 C "HO2'" H N N 145 C "H1'" H N N 146 C H41 H N N 147 C H42 H N N 148 C H5 H N N 149 C H6 H N N 150 G OP3 O N N 151 G P P N N 152 G OP1 O N N 153 G OP2 O N N 154 G "O5'" O N N 155 G "C5'" C N N 156 G "C4'" C N R 157 G "O4'" O N N 158 G "C3'" C N S 159 G "O3'" O N N 160 G "C2'" C N R 161 G "O2'" O N N 162 G "C1'" C N R 163 G N9 N Y N 164 G C8 C Y N 165 G N7 N Y N 166 G C5 C Y N 167 G C6 C N N 168 G O6 O N N 169 G N1 N N N 170 G C2 C N N 171 G N2 N N N 172 G N3 N N N 173 G C4 C Y N 174 G HOP3 H N N 175 G HOP2 H N N 176 G "H5'" H N N 177 G "H5''" H N N 178 G "H4'" H N N 179 G "H3'" H N N 180 G "HO3'" H N N 181 G "H2'" H N N 182 G "HO2'" H N N 183 G "H1'" H N N 184 G H8 H N N 185 G H1 H N N 186 G H21 H N N 187 G H22 H N N 188 NCO CO CO N N 189 NCO N1 N N N 190 NCO N2 N N N 191 NCO N3 N N N 192 NCO N4 N N N 193 NCO N5 N N N 194 NCO N6 N N N 195 NCO HN11 H N N 196 NCO HN12 H N N 197 NCO HN13 H N N 198 NCO HN21 H N N 199 NCO HN22 H N N 200 NCO HN23 H N N 201 NCO HN31 H N N 202 NCO HN32 H N N 203 NCO HN33 H N N 204 NCO HN41 H N N 205 NCO HN42 H N N 206 NCO HN43 H N N 207 NCO HN51 H N N 208 NCO HN52 H N N 209 NCO HN53 H N N 210 NCO HN61 H N N 211 NCO HN62 H N N 212 NCO HN63 H N N 213 S9L O3P O N N 214 S9L P P N N 215 S9L O1P O N N 216 S9L O2P O N N 217 S9L "O5'" O N N 218 S9L C12 C N N 219 S9L C22 C N N 220 S9L OH3 O N N 221 S9L C13 C N N 222 S9L C23 C N N 223 S9L OH4 O N N 224 S9L C14 C N N 225 S9L C24 C N N 226 S9L "O3'" O N N 227 S9L HO3P H N N 228 S9L HO1P H N N 229 S9L H121 H N N 230 S9L H122 H N N 231 S9L H221 H N N 232 S9L H222 H N N 233 S9L H131 H N N 234 S9L H132 H N N 235 S9L H231 H N N 236 S9L H232 H N N 237 S9L H141 H N N 238 S9L H142 H N N 239 S9L H241 H N N 240 S9L H242 H N N 241 S9L "HO3'" H N N 242 SO4 S S N N 243 SO4 O1 O N N 244 SO4 O2 O N N 245 SO4 O3 O N N 246 SO4 O4 O N N 247 U OP3 O N N 248 U P P N N 249 U OP1 O N N 250 U OP2 O N N 251 U "O5'" O N N 252 U "C5'" C N N 253 U "C4'" C N R 254 U "O4'" O N N 255 U "C3'" C N S 256 U "O3'" O N N 257 U "C2'" C N R 258 U "O2'" O N N 259 U "C1'" C N R 260 U N1 N N N 261 U C2 C N N 262 U O2 O N N 263 U N3 N N N 264 U C4 C N N 265 U O4 O N N 266 U C5 C N N 267 U C6 C N N 268 U HOP3 H N N 269 U HOP2 H N N 270 U "H5'" H N N 271 U "H5''" H N N 272 U "H4'" H N N 273 U "H3'" H N N 274 U "HO3'" H N N 275 U "H2'" H N N 276 U "HO2'" H N N 277 U "H1'" H N N 278 U H3 H N N 279 U H5 H N N 280 U H6 H N N 281 # 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 1DP P O3P sing N N 1 1DP O3P HO3P sing N N 2 1DP "O5'" P sing N N 3 1DP O1P P doub N N 4 1DP P O2P sing N N 5 1DP O2P HO2P sing N N 6 1DP "O5'" "C5'" sing N N 7 1DP "C4'" "C5'" sing N N 8 1DP "C5'" "H5'" sing N N 9 1DP "C5'" "H5'A" sing N N 10 1DP "C3'" "C4'" sing N N 11 1DP "C4'" "O4'" sing N N 12 1DP "C4'" "H4'" sing N N 13 1DP "C1'" "O4'" sing N N 14 1DP "C2'" "C1'" sing N N 15 1DP N9 "C1'" sing N N 16 1DP "C1'" "H1'" sing N N 17 1DP C4 N9 sing Y N 18 1DP N9 C8 sing Y N 19 1DP N3 C4 doub Y N 20 1DP C4 C5 sing Y N 21 1DP C2 N3 sing Y N 22 1DP C1 C2 doub Y N 23 1DP C2 H2 sing N N 24 1DP C1 C6 sing Y N 25 1DP C1 H1 sing N N 26 1DP N6 C6 sing N N 27 1DP C6 C5 doub Y N 28 1DP N6 HN6 sing N N 29 1DP N6 HN6A sing N N 30 1DP C5 N7 sing Y N 31 1DP N7 C8 doub Y N 32 1DP C8 H8 sing N N 33 1DP "O2'" "C2'" sing N N 34 1DP "C2'" "C3'" sing N N 35 1DP "C2'" "H2'" sing N N 36 1DP "O2'" "HO2'" sing N N 37 1DP "O3'" "C3'" sing N N 38 1DP "C3'" "H3'" sing N N 39 1DP "O3'" "HO3'" sing N N 40 A OP3 P sing N N 41 A OP3 HOP3 sing N N 42 A P OP1 doub N N 43 A P OP2 sing N N 44 A P "O5'" sing N N 45 A OP2 HOP2 sing N N 46 A "O5'" "C5'" sing N N 47 A "C5'" "C4'" sing N N 48 A "C5'" "H5'" sing N N 49 A "C5'" "H5''" sing N N 50 A "C4'" "O4'" sing N N 51 A "C4'" "C3'" sing N N 52 A "C4'" "H4'" sing N N 53 A "O4'" "C1'" sing N N 54 A "C3'" "O3'" sing N N 55 A "C3'" "C2'" sing N N 56 A "C3'" "H3'" sing N N 57 A "O3'" "HO3'" sing N N 58 A "C2'" "O2'" sing N N 59 A "C2'" "C1'" sing N N 60 A "C2'" "H2'" sing N N 61 A "O2'" "HO2'" sing N N 62 A "C1'" N9 sing N N 63 A "C1'" "H1'" sing N N 64 A N9 C8 sing Y N 65 A N9 C4 sing Y N 66 A C8 N7 doub Y N 67 A C8 H8 sing N N 68 A N7 C5 sing Y N 69 A C5 C6 sing Y N 70 A C5 C4 doub Y N 71 A C6 N6 sing N N 72 A C6 N1 doub Y N 73 A N6 H61 sing N N 74 A N6 H62 sing N N 75 A N1 C2 sing Y N 76 A C2 N3 doub Y N 77 A C2 H2 sing N N 78 A N3 C4 sing Y N 79 A2M P OP1 doub N N 80 A2M P OP3 sing N N 81 A2M P "O5'" sing N N 82 A2M OP3 HOP3 sing N N 83 A2M "O5'" "C5'" sing N N 84 A2M "C5'" "C4'" sing N N 85 A2M "C5'" "H5'" sing N N 86 A2M "C5'" "H5''" sing N N 87 A2M "C4'" "O4'" sing N N 88 A2M "C4'" "C3'" sing N N 89 A2M "C4'" "H4'" sing N N 90 A2M "O4'" "C1'" sing N N 91 A2M "C3'" "O3'" sing N N 92 A2M "C3'" "C2'" sing N N 93 A2M "C3'" "H3'" sing N N 94 A2M "O3'" "HO3'" sing N N 95 A2M "C2'" "O2'" sing N N 96 A2M "C2'" "C1'" sing N N 97 A2M "C2'" "H2'" sing N N 98 A2M "O2'" "CM'" sing N N 99 A2M "C1'" N9 sing N N 100 A2M "C1'" "H1'" sing N N 101 A2M "CM'" "HM'1" sing N N 102 A2M "CM'" "HM'2" sing N N 103 A2M "CM'" "HM'3" sing N N 104 A2M N9 C8 sing Y N 105 A2M N9 C4 sing Y N 106 A2M C8 N7 doub Y N 107 A2M C8 H8 sing N N 108 A2M N7 C5 sing Y N 109 A2M C5 C6 sing Y N 110 A2M C5 C4 doub Y N 111 A2M C6 N6 sing N N 112 A2M C6 N1 doub Y N 113 A2M N6 H61 sing N N 114 A2M N6 H62 sing N N 115 A2M N1 C2 sing Y N 116 A2M C2 N3 doub Y N 117 A2M C2 H2 sing N N 118 A2M N3 C4 sing Y N 119 A2M P OP2 sing N N 120 A2M OP2 HOP2 sing N N 121 C OP3 P sing N N 122 C OP3 HOP3 sing N N 123 C P OP1 doub N N 124 C P OP2 sing N N 125 C P "O5'" sing N N 126 C OP2 HOP2 sing N N 127 C "O5'" "C5'" sing N N 128 C "C5'" "C4'" sing N N 129 C "C5'" "H5'" sing N N 130 C "C5'" "H5''" sing N N 131 C "C4'" "O4'" sing N N 132 C "C4'" "C3'" sing N N 133 C "C4'" "H4'" sing N N 134 C "O4'" "C1'" sing N N 135 C "C3'" "O3'" sing N N 136 C "C3'" "C2'" sing N N 137 C "C3'" "H3'" sing N N 138 C "O3'" "HO3'" sing N N 139 C "C2'" "O2'" sing N N 140 C "C2'" "C1'" sing N N 141 C "C2'" "H2'" sing N N 142 C "O2'" "HO2'" sing N N 143 C "C1'" N1 sing N N 144 C "C1'" "H1'" sing N N 145 C N1 C2 sing N N 146 C N1 C6 sing N N 147 C C2 O2 doub N N 148 C C2 N3 sing N N 149 C N3 C4 doub N N 150 C C4 N4 sing N N 151 C C4 C5 sing N N 152 C N4 H41 sing N N 153 C N4 H42 sing N N 154 C C5 C6 doub N N 155 C C5 H5 sing N N 156 C C6 H6 sing N N 157 G OP3 P sing N N 158 G OP3 HOP3 sing N N 159 G P OP1 doub N N 160 G P OP2 sing N N 161 G P "O5'" sing N N 162 G OP2 HOP2 sing N N 163 G "O5'" "C5'" sing N N 164 G "C5'" "C4'" sing N N 165 G "C5'" "H5'" sing N N 166 G "C5'" "H5''" sing N N 167 G "C4'" "O4'" sing N N 168 G "C4'" "C3'" sing N N 169 G "C4'" "H4'" sing N N 170 G "O4'" "C1'" sing N N 171 G "C3'" "O3'" sing N N 172 G "C3'" "C2'" sing N N 173 G "C3'" "H3'" sing N N 174 G "O3'" "HO3'" sing N N 175 G "C2'" "O2'" sing N N 176 G "C2'" "C1'" sing N N 177 G "C2'" "H2'" sing N N 178 G "O2'" "HO2'" sing N N 179 G "C1'" N9 sing N N 180 G "C1'" "H1'" sing N N 181 G N9 C8 sing Y N 182 G N9 C4 sing Y N 183 G C8 N7 doub Y N 184 G C8 H8 sing N N 185 G N7 C5 sing Y N 186 G C5 C6 sing N N 187 G C5 C4 doub Y N 188 G C6 O6 doub N N 189 G C6 N1 sing N N 190 G N1 C2 sing N N 191 G N1 H1 sing N N 192 G C2 N2 sing N N 193 G C2 N3 doub N N 194 G N2 H21 sing N N 195 G N2 H22 sing N N 196 G N3 C4 sing N N 197 NCO CO N1 sing N N 198 NCO CO N2 sing N N 199 NCO CO N3 sing N N 200 NCO CO N4 sing N N 201 NCO CO N5 sing N N 202 NCO CO N6 sing N N 203 NCO N1 HN11 sing N N 204 NCO N1 HN12 sing N N 205 NCO N1 HN13 sing N N 206 NCO N2 HN21 sing N N 207 NCO N2 HN22 sing N N 208 NCO N2 HN23 sing N N 209 NCO N3 HN31 sing N N 210 NCO N3 HN32 sing N N 211 NCO N3 HN33 sing N N 212 NCO N4 HN41 sing N N 213 NCO N4 HN42 sing N N 214 NCO N4 HN43 sing N N 215 NCO N5 HN51 sing N N 216 NCO N5 HN52 sing N N 217 NCO N5 HN53 sing N N 218 NCO N6 HN61 sing N N 219 NCO N6 HN62 sing N N 220 NCO N6 HN63 sing N N 221 S9L O3P P sing N N 222 S9L O3P HO3P sing N N 223 S9L P O2P doub N N 224 S9L P O1P sing N N 225 S9L P "O5'" sing N N 226 S9L O1P HO1P sing N N 227 S9L "O5'" C12 sing N N 228 S9L C12 C22 sing N N 229 S9L C12 H121 sing N N 230 S9L C12 H122 sing N N 231 S9L C22 OH3 sing N N 232 S9L C22 H221 sing N N 233 S9L C22 H222 sing N N 234 S9L OH3 C23 sing N N 235 S9L C13 C23 sing N N 236 S9L C13 OH4 sing N N 237 S9L C13 H131 sing N N 238 S9L C13 H132 sing N N 239 S9L C23 H231 sing N N 240 S9L C23 H232 sing N N 241 S9L OH4 C24 sing N N 242 S9L C14 C24 sing N N 243 S9L C14 "O3'" sing N N 244 S9L C14 H141 sing N N 245 S9L C14 H142 sing N N 246 S9L C24 H241 sing N N 247 S9L C24 H242 sing N N 248 S9L "O3'" "HO3'" sing N N 249 SO4 S O1 doub N N 250 SO4 S O2 doub N N 251 SO4 S O3 sing N N 252 SO4 S O4 sing N N 253 U OP3 P sing N N 254 U OP3 HOP3 sing N N 255 U P OP1 doub N N 256 U P OP2 sing N N 257 U P "O5'" sing N N 258 U OP2 HOP2 sing N N 259 U "O5'" "C5'" sing N N 260 U "C5'" "C4'" sing N N 261 U "C5'" "H5'" sing N N 262 U "C5'" "H5''" sing N N 263 U "C4'" "O4'" sing N N 264 U "C4'" "C3'" sing N N 265 U "C4'" "H4'" sing N N 266 U "O4'" "C1'" sing N N 267 U "C3'" "O3'" sing N N 268 U "C3'" "C2'" sing N N 269 U "C3'" "H3'" sing N N 270 U "O3'" "HO3'" sing N N 271 U "C2'" "O2'" sing N N 272 U "C2'" "C1'" sing N N 273 U "C2'" "H2'" sing N N 274 U "O2'" "HO2'" sing N N 275 U "C1'" N1 sing N N 276 U "C1'" "H1'" sing N N 277 U N1 C2 sing N N 278 U N1 C6 sing N N 279 U C2 O2 doub N N 280 U C2 N3 sing N N 281 U N3 C4 sing N N 282 U N3 H3 sing N N 283 U C4 O4 doub N N 284 U C4 C5 sing N N 285 U C5 C6 doub N N 286 U C5 H5 sing N N 287 U C6 H6 sing N N 288 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3I2S 'double helix' 3I2S 'a-form double helix' 3I2S 'bulge loop' 3I2S 'mismatched base pair' 3I2S 'internal loop' # 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 C 2 1_555 B G 12 1_555 0.070 -0.092 -0.494 6.458 -20.527 3.436 1 A_C-4:G13_B A -4 ? B 13 ? 19 1 1 A C 3 1_555 B G 11 1_555 0.191 -0.309 -0.018 -2.422 -0.349 0.991 2 A_C-3:G12_B A -3 ? B 12 ? 19 1 1 A C 4 1_555 B G 10 1_555 0.453 -0.032 -0.066 5.488 -0.834 7.050 3 A_C-2:G11_B A -2 ? B 11 ? 19 1 1 A A2M 5 1_555 B A 8 1_555 6.452 -4.279 0.021 14.763 6.571 -26.735 4 A_A2M-1:A9_B A -1 ? B 9 ? ? 10 1 A U 7 1_555 B G 7 1_555 -8.013 -2.420 -0.067 15.174 3.977 4.652 5 A_U2:G8_B A 2 ? B 8 ? ? ? 1 A C 8 1_555 B A 6 1_555 -2.022 0.520 -0.946 20.938 -18.542 6.563 6 A_C3:A7_B A 3 ? B 7 ? ? ? 1 A C 9 1_555 B G 5 1_555 -0.141 0.163 -0.084 6.503 -6.075 6.652 7 A_C4:G6_B A 4 ? B 6 ? 19 1 1 A A 10 1_555 B U 4 1_555 0.259 -0.091 0.095 3.206 -6.901 3.664 8 A_A5:U5_B A 5 ? B 5 ? 20 1 1 A C 11 1_555 B G 3 1_555 0.214 0.290 -0.020 7.679 -9.073 8.767 9 A_C6:G4_B A 6 ? B 4 ? ? 1 1 A C 12 1_555 B G 2 1_555 0.699 -0.138 0.211 2.646 -11.486 9.720 10 A_C7:G3_B A 7 ? B 3 ? 19 1 1 A G 13 1_555 B C 1 1_555 -0.027 0.193 -0.005 -4.328 -8.787 11.939 11 A_G8:C2_B A 8 ? B 2 ? ? 1 1 B G 14 1_555 C C 19 1_555 -0.473 -0.083 0.375 2.496 -12.545 1.158 12 B_G15:C49_C B 15 ? C 49 ? 19 1 1 B G 15 1_555 C C 18 1_555 -0.368 -0.054 0.518 12.845 -7.785 0.983 13 B_G16:C48_C B 16 ? C 48 ? 19 1 1 B C 16 1_555 C G 17 1_555 0.040 0.150 -0.189 11.293 -16.691 5.353 14 B_C17:G47_C B 17 ? C 47 ? 19 1 1 B A 17 1_555 C U 16 1_555 -0.119 -0.066 -0.087 -1.912 -6.029 6.269 15 B_A18:U46_C B 18 ? C 46 ? 20 1 1 B G 18 1_555 C C 15 1_555 -0.314 -0.241 -0.368 -6.539 -5.182 2.765 16 B_G19:C45_C B 19 ? C 45 ? 19 1 1 B A 19 1_555 C C 14 1_555 2.186 0.158 -0.360 -13.500 -6.772 15.063 17 B_A20:C44_C B 20 ? C 44 ? ? 1 1 B G 20 1_555 C A 13 1_555 6.838 -4.667 0.066 -9.169 3.745 -8.832 18 B_G21:A43_C B 21 ? C 43 ? 11 10 1 B A 21 1_555 C U 11 1_555 -4.255 -1.693 -0.190 -3.803 -11.076 -103.382 19 B_A22:U41_C B 22 ? C 41 ? 24 4 1 B A 22 1_555 C A 10 1_555 -4.090 1.126 -0.190 0.605 -18.520 -99.952 20 B_A23:A40_C B 23 ? C 40 ? 5 4 1 B A 23 1_555 C A 8 1_555 5.495 2.906 -0.335 -2.878 -13.159 -152.535 21 B_A24:A38_C B 24 ? C 38 ? ? ? 1 B C 24 1_555 A G 6 1_555 0.424 -0.378 0.327 14.993 -12.151 -3.533 22 B_C25:G1_A B 25 ? A 1 ? 19 1 1 B A 25 1_555 C G 6 1_555 0.046 1.435 -0.488 -12.786 -10.433 -17.994 23 B_A26:G36_C B 26 ? C 36 ? 8 ? 1 B C 26 1_555 C G 5 1_555 -0.007 -0.096 0.056 4.781 -17.833 1.682 24 B_C27:G35_C B 27 ? C 35 ? 19 1 1 B A 27 1_555 C U 4 1_555 -0.036 -0.324 0.480 6.135 -16.641 0.471 25 B_A28:U34_C B 28 ? C 34 ? 20 1 1 B C 28 1_555 C G 3 1_555 0.141 -0.191 0.268 2.554 -10.301 2.294 26 B_C29:G33_C B 29 ? C 33 ? 19 1 1 B G 29 1_555 C C 2 1_555 -0.164 -0.136 0.278 -5.864 -12.634 -2.013 27 B_G30:C32_C B 30 ? C 32 ? 19 1 1 B A 30 1_555 C U 1 1_555 0.325 -0.074 0.036 -5.917 -5.912 2.263 28 B_A31:U31_C B 31 ? C 31 ? 20 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 C 2 1_555 B G 12 1_555 A C 3 1_555 B G 11 1_555 -0.389 -1.677 3.406 -4.046 13.231 35.661 -4.173 0.103 2.667 20.671 6.320 38.170 1 AA_C-4C-3:G12G13_BB A -4 ? B 13 ? A -3 ? B 12 ? 1 A C 3 1_555 B G 11 1_555 A C 4 1_555 B G 10 1_555 0.913 -1.737 3.137 3.330 4.977 27.438 -4.670 -1.154 2.872 10.338 -6.915 28.072 2 AA_C-3C-2:G11G12_BB A -3 ? B 12 ? A -2 ? B 11 ? 1 A C 4 1_555 B G 10 1_555 A A2M 5 1_555 B A 8 1_555 0.337 -0.714 5.116 0.763 34.144 72.891 -1.998 -0.231 4.493 27.337 -0.611 79.479 3 AA_C-2A2M-1:A9G11_BB A -2 ? B 11 ? A -1 ? B 9 ? 1 A A2M 5 1_555 B A 8 1_555 A U 7 1_555 B G 7 1_555 -0.672 0.413 3.347 2.213 1.061 9.264 0.297 8.559 3.126 6.424 -13.394 9.582 4 AA_A2M-1U2:G8A9_BB A -1 ? B 9 ? A 2 ? B 8 ? 1 A U 7 1_555 B G 7 1_555 A C 8 1_555 B A 6 1_555 -0.299 -0.792 3.266 -0.591 7.908 49.755 -1.486 0.310 3.117 9.331 0.697 50.343 5 AA_U2C3:A7G8_BB A 2 ? B 8 ? A 3 ? B 7 ? 1 A C 8 1_555 B A 6 1_555 A C 9 1_555 B G 5 1_555 -0.026 -1.396 3.662 -8.589 10.773 38.286 -3.294 -0.984 3.110 15.814 12.609 40.602 6 AA_C3C4:G6A7_BB A 3 ? B 7 ? A 4 ? B 6 ? 1 A C 9 1_555 B G 5 1_555 A A 10 1_555 B U 4 1_555 -0.433 -1.692 3.174 -1.743 8.871 34.620 -3.924 0.476 2.690 14.600 2.869 35.746 7 AA_C4A5:U5G6_BB A 4 ? B 6 ? A 5 ? B 5 ? 1 A A 10 1_555 B U 4 1_555 A C 11 1_555 B G 3 1_555 -0.006 -1.394 3.183 0.516 3.836 30.128 -3.390 0.110 2.986 7.341 -0.988 30.370 8 AA_A5C6:G4U5_BB A 5 ? B 5 ? A 6 ? B 4 ? 1 A C 11 1_555 B G 3 1_555 A C 12 1_555 B G 2 1_555 0.271 -1.759 3.257 0.184 7.762 34.102 -4.030 -0.425 2.803 13.027 -0.309 34.949 9 AA_C6C7:G3G4_BB A 6 ? B 4 ? A 7 ? B 3 ? 1 A C 12 1_555 B G 2 1_555 A G 13 1_555 B C 1 1_555 0.200 -1.586 3.174 3.607 11.014 30.143 -4.604 0.213 2.464 20.262 -6.635 32.246 10 AA_C7G8:C2G3_BB A 7 ? B 3 ? A 8 ? B 2 ? 1 B G 14 1_555 C C 19 1_555 B G 15 1_555 C C 18 1_555 -0.730 -1.120 2.910 -4.713 3.930 34.079 -2.420 0.584 2.840 6.640 7.961 34.611 11 BB_G15G16:C48C49_CC B 15 ? C 49 ? B 16 ? C 48 ? 1 B G 15 1_555 C C 18 1_555 B C 16 1_555 C G 17 1_555 0.506 -1.250 3.315 5.708 7.525 34.320 -3.130 -0.006 3.025 12.462 -9.452 35.558 12 BB_G16C17:G47C48_CC B 16 ? C 48 ? B 17 ? C 47 ? 1 B C 16 1_555 C G 17 1_555 B A 17 1_555 C U 16 1_555 0.316 -1.639 3.381 -2.744 12.968 31.316 -4.754 -0.953 2.491 22.788 4.822 33.941 13 BB_C17A18:U46G47_CC B 17 ? C 47 ? B 18 ? C 46 ? 1 B A 17 1_555 C U 16 1_555 B G 18 1_555 C C 15 1_555 0.280 -2.043 3.391 2.368 6.133 29.377 -5.162 -0.065 2.927 11.906 -4.596 30.088 14 BB_A18G19:C45U46_CC B 18 ? C 46 ? B 19 ? C 45 ? 1 B G 18 1_555 C C 15 1_555 B A 19 1_555 C C 14 1_555 0.915 -1.382 3.404 3.100 8.767 39.118 -3.018 -0.976 3.096 12.873 -4.552 40.166 15 BB_G19A20:C44C45_CC B 19 ? C 45 ? B 20 ? C 44 ? 1 B A 19 1_555 C C 14 1_555 B G 20 1_555 C A 13 1_555 -0.717 -1.143 3.151 5.029 5.864 59.071 -1.428 0.960 2.972 5.919 -5.077 59.529 16 BB_A20G21:A43C44_CC B 20 ? C 44 ? B 21 ? C 43 ? 1 B G 20 1_555 C A 13 1_555 B A 21 1_555 C U 11 1_555 -2.264 -0.533 3.333 2.649 -2.494 10.449 0.868 15.604 2.728 -13.181 -14.001 11.062 17 BB_G21A22:U41A43_CC B 21 ? C 43 ? B 22 ? C 41 ? 1 B A 21 1_555 C U 11 1_555 B A 22 1_555 C A 10 1_555 -0.036 -2.444 3.398 -8.844 3.982 45.575 -3.431 -0.706 3.140 5.073 11.266 46.542 18 BB_A22A23:A40U41_CC B 22 ? C 41 ? B 23 ? C 40 ? 1 B A 22 1_555 C A 10 1_555 B A 23 1_555 C A 8 1_555 -3.215 -3.189 3.604 -3.796 1.457 76.563 -2.619 2.468 3.684 1.175 3.062 76.654 19 BB_A23A24:A38A40_CC B 23 ? C 40 ? B 24 ? C 38 ? 1 B A 23 1_555 C A 8 1_555 B C 24 1_555 A G 6 1_555 2.353 -0.193 2.939 -0.934 4.317 -31.311 -0.375 4.161 3.005 -7.949 -1.721 -31.613 20 BB_A24C25:G1A38_AC B 24 ? C 38 ? B 25 ? A 1 ? 1 B C 24 1_555 A G 6 1_555 B A 25 1_555 C G 6 1_555 0.129 -2.316 3.777 6.506 4.610 43.685 -3.548 0.507 3.511 6.134 -8.657 44.371 21 BB_C25A26:G36G1_CA B 25 ? A 1 ? B 26 ? C 36 ? 1 B A 25 1_555 C G 6 1_555 B C 26 1_555 C G 5 1_555 1.256 -0.501 2.853 -4.206 2.512 30.690 -1.340 -3.024 2.613 4.708 7.884 31.070 22 BB_A26C27:G35G36_CC B 26 ? C 36 ? B 27 ? C 35 ? 1 B C 26 1_555 C G 5 1_555 B A 27 1_555 C U 4 1_555 0.208 -1.133 3.124 -2.074 6.520 35.158 -2.709 -0.613 2.859 10.669 3.394 35.797 23 BB_C27A28:U34G35_CC B 27 ? C 35 ? B 28 ? C 34 ? 1 B A 27 1_555 C U 4 1_555 B C 28 1_555 C G 3 1_555 0.466 -1.211 3.272 3.267 0.541 34.261 -2.131 -0.276 3.282 0.916 -5.529 34.416 24 BB_A28C29:G33U34_CC B 28 ? C 34 ? B 29 ? C 33 ? 1 B C 28 1_555 C G 3 1_555 B G 29 1_555 C C 2 1_555 0.232 -1.665 3.179 2.968 9.653 33.775 -4.056 0.017 2.629 16.170 -4.972 35.210 25 BB_C29G30:C32G33_CC B 29 ? C 33 ? B 30 ? C 32 ? 1 B G 29 1_555 C C 2 1_555 B A 30 1_555 C U 1 1_555 0.824 -1.613 3.158 6.357 5.800 32.212 -3.729 -0.434 2.936 10.228 -11.209 33.312 26 BB_G30A31:U31C32_CC B 30 ? C 32 ? B 31 ? C 31 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 4 'SULFATE ION' SO4 5 'COBALT HEXAMMINE(III)' NCO # _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 2OUE _pdbx_initial_refinement_model.details 'PDB entry 2OUE' #