data_9K8P # _entry.id 9K8P # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.406 _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 9K8P pdb_00009k8p 10.2210/pdb9k8p/pdb WWPDB D_1300052867 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2025-10-29 _pdbx_audit_revision_history.part_number ? # _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 ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9K8P _pdbx_database_status.recvd_initial_deposition_date 2024-10-24 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type PDB 'crystal structure of a related molecule' 9K8O unspecified PDB 'NMR solution structure of the same molecule in a hairpin form' 9K8N unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email k-yamasaki@aist.go.jp _pdbx_contact_author.name_first Kazuhiko _pdbx_contact_author.name_last Yamasaki _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-0320-9697 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Yamasaki, K.' 1 ? 'Yamasaki, T.' 2 ? 'Kubota, T.' 3 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'A minimal Zn2+-dependent RNA-cleaving DNAzyme and its B-DNA-like crystal and solution structures' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yamasaki, K.' 1 ? primary 'Inomata, R.' 2 ? primary 'Yamasaki, T.' 3 ? primary 'Kubota, T.' 4 ? primary 'Miyashita, N.' 5 ? primary 'Takeuchi, K.' 6 ? primary 'Miyagishi, M.' 7 ? # 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 'DNAzyme minGAA' 8094.208 2 ? ? ? ? 2 non-polymer syn 'ZINC ION' 65.409 4 ? ? ? ? 3 water nat water 18.015 6 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polydeoxyribonucleotide/polyribonucleotide hybrid' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;(DG)(DG)(DA)(DT)(DC)(DA)(DC)(DC)(DC)(DG)(DC)(DG)(DA)(DA)(DG)(DC)(DG)(OMG)AA(DG) (DG)(DA)(DT)(DC)(DC) ; _entity_poly.pdbx_seq_one_letter_code_can GGATCACCCGCGAAGCGGAAGGATCC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'ZINC ION' ZN 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DG n 1 3 DA n 1 4 DT n 1 5 DC n 1 6 DA n 1 7 DC n 1 8 DC n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n 1 13 DA n 1 14 DA n 1 15 DG n 1 16 DC n 1 17 DG n 1 18 OMG n 1 19 A n 1 20 A n 1 21 DG n 1 22 DG n 1 23 DA n 1 24 DT n 1 25 DC n 1 26 DC n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 26 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 OMG 'RNA linking' n "O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O8 P' 377.247 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # 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 DG 1 1 1 DG DG A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DA 3 3 3 DA DA A . n A 1 4 DT 4 4 4 DT DT A . n A 1 5 DC 5 5 5 DC DC A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DC 8 8 8 DC DC A . n A 1 9 DC 9 9 9 DC DC A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n A 1 13 DA 13 13 13 DA DA A . n A 1 14 DA 14 14 14 DA DA A . n A 1 15 DG 15 15 15 DG DG A . n A 1 16 DC 16 16 16 DC DC A . n A 1 17 DG 17 17 17 DG DG A . n A 1 18 OMG 18 18 18 OMG G2M A . n A 1 19 A 19 19 19 A A A . n A 1 20 A 20 20 20 A A A . n A 1 21 DG 21 21 21 DG DG A . n A 1 22 DG 22 22 22 DG DG A . n A 1 23 DA 23 23 23 DA DA A . n A 1 24 DT 24 24 24 DT DT A . n A 1 25 DC 25 25 25 DC DC A . n A 1 26 DC 26 26 26 DC DC A . n B 1 1 DG 1 1 1 DG DG B . n B 1 2 DG 2 2 2 DG DG B . n B 1 3 DA 3 3 3 DA DA B . n B 1 4 DT 4 4 4 DT DT B . n B 1 5 DC 5 5 5 DC DC B . n B 1 6 DA 6 6 6 DA DA B . n B 1 7 DC 7 7 7 DC DC B . n B 1 8 DC 8 8 8 DC DC B . n B 1 9 DC 9 9 9 DC DC B . n B 1 10 DG 10 10 10 DG DG B . n B 1 11 DC 11 11 11 DC DC B . n B 1 12 DG 12 12 12 DG DG B . n B 1 13 DA 13 13 13 DA DA B . n B 1 14 DA 14 14 14 DA DA B . n B 1 15 DG 15 15 15 DG DG B . n B 1 16 DC 16 16 16 DC DC B . n B 1 17 DG 17 17 17 DG DG B . n B 1 18 OMG 18 18 18 OMG G2M B . n B 1 19 A 19 19 19 A A B . n B 1 20 A 20 20 20 A A B . n B 1 21 DG 21 21 21 DG DG B . n B 1 22 DG 22 22 22 DG DG B . n B 1 23 DA 23 23 23 DA DA B . n B 1 24 DT 24 24 24 DT DT B . n B 1 25 DC 25 25 25 DC DC B . n B 1 26 DC 26 26 26 DC DC B . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id OMG _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id OMG _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # 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 C 2 ZN 1 101 101 ZN ZN A . D 2 ZN 1 102 102 ZN ZN A . E 2 ZN 1 101 101 ZN ZN B . F 2 ZN 1 102 102 ZN ZN B . G 3 HOH 1 201 7 HOH HOH A . G 3 HOH 2 202 11 HOH HOH A . G 3 HOH 3 203 12 HOH HOH A . G 3 HOH 4 204 6 HOH HOH A . H 3 HOH 1 201 10 HOH HOH B . H 3 HOH 2 202 8 HOH HOH B . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 B DC 26 ? "C5'" ? B DC 26 "C5'" 2 1 Y 1 B DC 26 ? "C4'" ? B DC 26 "C4'" 3 1 Y 1 B DC 26 ? "O4'" ? B DC 26 "O4'" 4 1 Y 1 B DC 26 ? "C3'" ? B DC 26 "C3'" 5 1 Y 1 B DC 26 ? "O3'" ? B DC 26 "O3'" 6 1 Y 1 B DC 26 ? "C2'" ? B DC 26 "C2'" 7 1 Y 1 B DC 26 ? "C1'" ? B DC 26 "C1'" 8 1 Y 1 B DC 26 ? N1 ? B DC 26 N1 9 1 Y 1 B DC 26 ? C2 ? B DC 26 C2 10 1 Y 1 B DC 26 ? O2 ? B DC 26 O2 11 1 Y 1 B DC 26 ? N3 ? B DC 26 N3 12 1 Y 1 B DC 26 ? C4 ? B DC 26 C4 13 1 Y 1 B DC 26 ? N4 ? B DC 26 N4 14 1 Y 1 B DC 26 ? C5 ? B DC 26 C5 15 1 Y 1 B DC 26 ? C6 ? B DC 26 C6 # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0258 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 106.95 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 9K8P _cell.details ? _cell.formula_units_Z ? _cell.length_a 68.096 _cell.length_a_esd ? _cell.length_b 50.382 _cell.length_b_esd ? _cell.length_c 51.382 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9K8P _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9K8P _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.60 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 52.77 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;6.75% 2-methyl-2,4-pentandiol (MPD), 50 mM guanidine hydrochloride, 18 mM HEPES (7.5), 5.4 mM spermine, 18 mM LiCl, 36 mM SrCl2, 4.5 mM MgCl2, and 1 mM ZnCl2 ; _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 293 # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 4M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2020-03-05 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.08 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-1A' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.08 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL-1A _diffrn_source.pdbx_synchrotron_site 'Photon Factory' # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 9K8P _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.85 _reflns.d_resolution_low 49.16 _reflns.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.number_all ? _reflns.number_obs 3855 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 92.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.38 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.4 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.997 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.042 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 2.85 _reflns_shell.d_res_low 3.02 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1071 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy 1.69 _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.649 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 85.7 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.70 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] 0.28 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.01 _refine.aniso_B[2][2] -0.41 _refine.aniso_B[2][3] 0.00 _refine.aniso_B[3][3] 0.10 _refine.B_iso_max ? _refine.B_iso_mean 108.704 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.946 _refine.correlation_coeff_Fo_to_Fc_free 0.929 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 9K8P _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.85 _refine.ls_d_res_low 49.15 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 3661 _refine.ls_number_reflns_R_free 193 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 97.18 _refine.ls_percent_reflns_R_free 5.0 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.24784 _refine.ls_R_factor_R_free 0.32929 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.24316 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details MASK _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free 0.529 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 26.700 _refine.overall_SU_ML 0.521 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id 1 _refine_hist.details ? _refine_hist.d_res_high 2.85 _refine_hist.d_res_low 49.15 _refine_hist.number_atoms_solvent 6 _refine_hist.number_atoms_total 1071 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1061 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.005 0.011 1228 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.003 0.020 586 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.238 1.178 1898 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.596 2.979 1386 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'X-RAY DIFFRACTION' ? 0.097 0.200 165 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.009 0.020 665 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.002 0.020 300 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 10.635 11.273 1226 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 10.628 11.269 1222 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 15.086 16.890 1892 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 18.696 ? 1733 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 18.691 ? 1734 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 2.852 _refine_ls_shell.d_res_low 2.926 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 13 _refine_ls_shell.number_reflns_R_work 247 _refine_ls_shell.percent_reflns_obs 93.19 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.510 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_R_complete ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? _refine_ls_shell.R_factor_R_free 0.745 # _struct.entry_id 9K8P _struct.title 'Crystal structure of a short zinc-dependent DNAzyme minGAA, dimeric form' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9K8P _struct_keywords.text 'DNAzyme, RNA cleavage, Zinc-dependent, DNA-RNA HYBRID' _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' # 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 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9K8P _struct_ref.pdbx_db_accession 9K8P _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # 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 9K8P A 1 ? 26 ? 9K8P 1 ? 26 ? 1 26 2 1 9K8P B 1 ? 26 ? 9K8P 1 ? 26 ? 1 26 # 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_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 # 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)' 4580 ? 1 MORE -102 ? 1 'SSA (A^2)' 8760 ? 2 'ABSA (A^2)' 4470 ? 2 MORE -97 ? 2 'SSA (A^2)' 8640 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2 A,C,D,G 2 1,3 B,E,F,H # loop_ _pdbx_struct_assembly_auth_evidence.id _pdbx_struct_assembly_auth_evidence.assembly_id _pdbx_struct_assembly_auth_evidence.experimental_support _pdbx_struct_assembly_auth_evidence.details 1 1 'native gel electrophoresis' ? 2 2 'native gel electrophoresis' ? # 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' 2_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 3 'crystal symmetry operation' 2_655 -x+1,y,-z -1.0000000000 0.0000000000 0.0000000000 68.0960000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # 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 DG 17 "O3'" ? ? ? 1_555 A OMG 18 P ? ? A DG 17 A OMG 18 1_555 ? ? ? ? ? ? ? 1.581 ? ? covale2 covale both ? A OMG 18 "O3'" ? ? ? 1_555 A A 19 P ? ? A OMG 18 A A 19 1_555 ? ? ? ? ? ? ? 1.584 ? ? covale3 covale both ? B DG 17 "O3'" ? ? ? 1_555 B OMG 18 P ? ? B DG 17 B OMG 18 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale4 covale both ? B OMG 18 "O3'" ? ? ? 1_555 B A 19 P ? ? B OMG 18 B A 19 1_555 ? ? ? ? ? ? ? 1.597 ? ? metalc1 metalc ? ? A DG 21 N7 ? ? ? 1_555 C ZN . ZN ? ? A DG 21 A ZN 101 1_555 ? ? ? ? ? ? ? 2.128 ? ? metalc2 metalc ? ? B A 20 OP2 ? ? ? 1_555 E ZN . ZN ? ? B A 20 B ZN 101 1_555 ? ? ? ? ? ? ? 2.491 ? ? metalc3 metalc ? ? B DG 21 N7 ? ? ? 1_555 E ZN . ZN ? ? B DG 21 B ZN 101 1_555 ? ? ? ? ? ? ? 2.450 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DC 26 N3 ? ? A DG 1 A DC 26 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DC 26 O2 ? ? A DG 1 A DC 26 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DC 26 N4 ? ? A DG 1 A DC 26 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 25 N3 ? ? A DG 2 A DC 25 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 25 O2 ? ? A DG 2 A DC 25 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 25 N4 ? ? A DG 2 A DC 25 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 24 N3 ? ? A DA 3 A DT 24 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 24 O4 ? ? A DA 3 A DT 24 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 23 N1 ? ? A DT 4 A DA 23 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 23 N6 ? ? A DT 4 A DA 23 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 22 N1 ? ? A DC 5 A DG 22 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 22 O6 ? ? A DC 5 A DG 22 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 22 N2 ? ? A DC 5 A DG 22 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 6 N1 ? ? ? 1_555 A DG 21 N1 ? ? A DA 6 A DG 21 2_555 ? ? ? ? ? ? 'DA-DG MISPAIR' ? ? ? hydrog15 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A OMG 18 N1 ? ? A DC 8 A OMG 18 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A OMG 18 O6 ? ? A DC 8 A OMG 18 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A OMG 18 N2 ? ? A DC 8 A OMG 18 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 9 N3 ? ? ? 1_555 A DG 17 N1 ? ? A DC 9 A DG 17 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 9 N4 ? ? ? 1_555 A DG 17 O6 ? ? A DC 9 A DG 17 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 9 O2 ? ? ? 1_555 A DG 17 N2 ? ? A DC 9 A DG 17 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DC 16 N3 ? ? A DG 10 A DC 16 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DC 16 O2 ? ? A DG 10 A DC 16 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 10 O6 ? ? ? 1_555 A DC 16 N4 ? ? A DG 10 A DC 16 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 11 N3 ? ? ? 1_555 A DG 15 N1 ? ? A DC 11 A DG 15 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 11 N4 ? ? ? 1_555 A DG 15 O6 ? ? A DC 11 A DG 15 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 11 O2 ? ? ? 1_555 A DG 15 N2 ? ? A DC 11 A DG 15 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DA 14 N6 ? ? ? 1_555 A DC 11 N3 ? ? A DA 14 A DC 11 2_555 ? ? ? ? ? ? 'DA-DC MISPAIR' ? ? ? hydrog28 hydrog ? ? A DG 15 N1 ? ? ? 1_555 A DC 11 N3 ? ? A DG 15 A DC 11 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DG 15 N2 ? ? ? 1_555 A DC 11 O2 ? ? A DG 15 A DC 11 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 15 O6 ? ? ? 1_555 A DC 11 N4 ? ? A DG 15 A DC 11 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DC 16 N3 ? ? ? 1_555 A DG 10 N1 ? ? A DC 16 A DG 10 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DC 16 N4 ? ? ? 1_555 A DG 10 O6 ? ? A DC 16 A DG 10 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A DC 16 O2 ? ? ? 1_555 A DG 10 N2 ? ? A DC 16 A DG 10 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A DG 17 N1 ? ? ? 1_555 A DC 9 N3 ? ? A DG 17 A DC 9 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A DG 17 N2 ? ? ? 1_555 A DC 9 O2 ? ? A DG 17 A DC 9 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A DG 17 O6 ? ? ? 1_555 A DC 9 N4 ? ? A DG 17 A DC 9 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A DG 17 N2 ? ? ? 1_555 A A 19 N7 ? ? A DG 17 A A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog38 hydrog ? ? A DG 17 N3 ? ? ? 1_555 A A 19 N6 ? ? A DG 17 A A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog39 hydrog ? ? A OMG 18 N1 ? ? ? 1_555 A DC 8 N3 ? ? A OMG 18 A DC 8 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A OMG 18 N2 ? ? ? 1_555 A DC 8 O2 ? ? A OMG 18 A DC 8 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A OMG 18 O6 ? ? ? 1_555 A DC 8 N4 ? ? A OMG 18 A DC 8 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A DG 21 N1 ? ? ? 1_555 A DA 6 N1 ? ? A DG 21 A DA 6 2_555 ? ? ? ? ? ? 'DG-DA MISPAIR' ? ? ? hydrog43 hydrog ? ? A DG 22 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 22 A DC 5 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A DG 22 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 22 A DC 5 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A DG 22 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 22 A DC 5 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A DA 23 N1 ? ? ? 1_555 A DT 4 N3 ? ? A DA 23 A DT 4 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A DA 23 N6 ? ? ? 1_555 A DT 4 O4 ? ? A DA 23 A DT 4 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A DT 24 N3 ? ? ? 1_555 A DA 3 N1 ? ? A DT 24 A DA 3 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A DT 24 O4 ? ? ? 1_555 A DA 3 N6 ? ? A DT 24 A DA 3 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A DC 25 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 25 A DG 2 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A DC 25 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 25 A DG 2 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A DC 25 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 25 A DG 2 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A DC 26 N3 ? ? ? 1_555 A DG 1 N1 ? ? A DC 26 A DG 1 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? A DC 26 N4 ? ? ? 1_555 A DG 1 O6 ? ? A DC 26 A DG 1 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? A DC 26 O2 ? ? ? 1_555 A DG 1 N2 ? ? A DC 26 A DG 1 2_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? B DG 2 N1 ? ? ? 1_555 B DC 25 N3 ? ? B DG 2 B DC 25 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? B DG 2 N2 ? ? ? 1_555 B DC 25 O2 ? ? B DG 2 B DC 25 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? B DG 2 O6 ? ? ? 1_555 B DC 25 N4 ? ? B DG 2 B DC 25 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? B DA 3 N1 ? ? ? 1_555 B DT 24 N3 ? ? B DA 3 B DT 24 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? B DA 3 N6 ? ? ? 1_555 B DT 24 O4 ? ? B DA 3 B DT 24 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? B DT 4 N3 ? ? ? 1_555 B DA 23 N1 ? ? B DT 4 B DA 23 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? B DT 4 O4 ? ? ? 1_555 B DA 23 N6 ? ? B DT 4 B DA 23 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? B DC 5 N3 ? ? ? 1_555 B DG 22 N1 ? ? B DC 5 B DG 22 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? B DC 5 N4 ? ? ? 1_555 B DG 22 O6 ? ? B DC 5 B DG 22 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? B DC 5 O2 ? ? ? 1_555 B DG 22 N2 ? ? B DC 5 B DG 22 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? B DC 8 N3 ? ? ? 1_555 B OMG 18 N1 ? ? B DC 8 B OMG 18 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? B DC 8 N4 ? ? ? 1_555 B OMG 18 O6 ? ? B DC 8 B OMG 18 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? B DC 8 O2 ? ? ? 1_555 B OMG 18 N2 ? ? B DC 8 B OMG 18 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? B DC 9 N3 ? ? ? 1_555 B DG 17 N1 ? ? B DC 9 B DG 17 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? B DC 9 N4 ? ? ? 1_555 B DG 17 O6 ? ? B DC 9 B DG 17 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? B DC 9 O2 ? ? ? 1_555 B DG 17 N2 ? ? B DC 9 B DG 17 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? B DG 10 N1 ? ? ? 1_555 B DC 16 N3 ? ? B DG 10 B DC 16 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? B DG 10 N2 ? ? ? 1_555 B DC 16 O2 ? ? B DG 10 B DC 16 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? B DG 10 O6 ? ? ? 1_555 B DC 16 N4 ? ? B DG 10 B DC 16 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? B DC 11 N3 ? ? ? 1_555 B DG 15 N1 ? ? B DC 11 B DG 15 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? B DC 11 N4 ? ? ? 1_555 B DG 15 O6 ? ? B DC 11 B DG 15 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? B DC 11 O2 ? ? ? 1_555 B DG 15 N2 ? ? B DC 11 B DG 15 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? B DG 12 N2 ? ? ? 1_555 B DA 13 N7 ? ? B DG 12 B DA 13 2_655 ? ? ? ? ? ? 'DG-DA MISPAIR' ? ? ? hydrog79 hydrog ? ? B DA 13 N7 ? ? ? 1_555 B DG 12 N2 ? ? B DA 13 B DG 12 2_655 ? ? ? ? ? ? 'DA-DG MISPAIR' ? ? ? hydrog80 hydrog ? ? B DA 14 N6 ? ? ? 1_555 B DC 11 N3 ? ? B DA 14 B DC 11 2_655 ? ? ? ? ? ? 'DA-DC MISPAIR' ? ? ? hydrog81 hydrog ? ? B DG 15 N1 ? ? ? 1_555 B DC 11 N3 ? ? B DG 15 B DC 11 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? B DG 15 N2 ? ? ? 1_555 B DC 11 O2 ? ? B DG 15 B DC 11 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog83 hydrog ? ? B DG 15 O6 ? ? ? 1_555 B DC 11 N4 ? ? B DG 15 B DC 11 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog84 hydrog ? ? B DC 16 N3 ? ? ? 1_555 B DG 10 N1 ? ? B DC 16 B DG 10 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? B DC 16 N4 ? ? ? 1_555 B DG 10 O6 ? ? B DC 16 B DG 10 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? B DC 16 O2 ? ? ? 1_555 B DG 10 N2 ? ? B DC 16 B DG 10 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? B DG 17 N1 ? ? ? 1_555 B DC 9 N3 ? ? B DG 17 B DC 9 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? B DG 17 N2 ? ? ? 1_555 B DC 9 O2 ? ? B DG 17 B DC 9 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog89 hydrog ? ? B DG 17 O6 ? ? ? 1_555 B DC 9 N4 ? ? B DG 17 B DC 9 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog90 hydrog ? ? B DG 17 N2 ? ? ? 1_555 B A 19 N7 ? ? B DG 17 B A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog91 hydrog ? ? B DG 17 N3 ? ? ? 1_555 B A 19 N6 ? ? B DG 17 B A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog92 hydrog ? ? B OMG 18 N1 ? ? ? 1_555 B DC 8 N3 ? ? B OMG 18 B DC 8 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog93 hydrog ? ? B OMG 18 N2 ? ? ? 1_555 B DC 8 O2 ? ? B OMG 18 B DC 8 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog94 hydrog ? ? B OMG 18 O6 ? ? ? 1_555 B DC 8 N4 ? ? B OMG 18 B DC 8 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog95 hydrog ? ? B DG 22 N1 ? ? ? 1_555 B DC 5 N3 ? ? B DG 22 B DC 5 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog96 hydrog ? ? B DG 22 N2 ? ? ? 1_555 B DC 5 O2 ? ? B DG 22 B DC 5 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog97 hydrog ? ? B DG 22 O6 ? ? ? 1_555 B DC 5 N4 ? ? B DG 22 B DC 5 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog98 hydrog ? ? B DA 23 N1 ? ? ? 1_555 B DT 4 N3 ? ? B DA 23 B DT 4 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog99 hydrog ? ? B DA 23 N6 ? ? ? 1_555 B DT 4 O4 ? ? B DA 23 B DT 4 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog100 hydrog ? ? B DT 24 N3 ? ? ? 1_555 B DA 3 N1 ? ? B DT 24 B DA 3 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog101 hydrog ? ? B DT 24 O4 ? ? ? 1_555 B DA 3 N6 ? ? B DT 24 B DA 3 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog102 hydrog ? ? B DC 25 N3 ? ? ? 1_555 B DG 2 N1 ? ? B DC 25 B DG 2 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog103 hydrog ? ? B DC 25 N4 ? ? ? 1_555 B DG 2 O6 ? ? B DC 25 B DG 2 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog104 hydrog ? ? B DC 25 O2 ? ? ? 1_555 B DG 2 N2 ? ? B DC 25 B DG 2 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id OP2 _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id B _pdbx_struct_conn_angle.ptnr1_label_comp_id A _pdbx_struct_conn_angle.ptnr1_label_seq_id 20 _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id B _pdbx_struct_conn_angle.ptnr1_auth_comp_id A _pdbx_struct_conn_angle.ptnr1_auth_seq_id 20 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id ZN _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id E _pdbx_struct_conn_angle.ptnr2_label_comp_id ZN _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id B _pdbx_struct_conn_angle.ptnr2_auth_comp_id ZN _pdbx_struct_conn_angle.ptnr2_auth_seq_id 101 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id N7 _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id B _pdbx_struct_conn_angle.ptnr3_label_comp_id DG _pdbx_struct_conn_angle.ptnr3_label_seq_id 21 _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id B _pdbx_struct_conn_angle.ptnr3_auth_comp_id DG _pdbx_struct_conn_angle.ptnr3_auth_seq_id 21 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 74.9 _pdbx_struct_conn_angle.value_esd ? # _pdbx_entry_details.entry_id 9K8P _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.has_protein_modification N # 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 DA OP3 O N N 38 DA P P N N 39 DA OP1 O N N 40 DA OP2 O N N 41 DA "O5'" O N N 42 DA "C5'" C N N 43 DA "C4'" C N R 44 DA "O4'" O N N 45 DA "C3'" C N S 46 DA "O3'" O N N 47 DA "C2'" C N N 48 DA "C1'" C N R 49 DA N9 N Y N 50 DA C8 C Y N 51 DA N7 N Y N 52 DA C5 C Y N 53 DA C6 C Y N 54 DA N6 N N N 55 DA N1 N Y N 56 DA C2 C Y N 57 DA N3 N Y N 58 DA C4 C Y N 59 DA HOP3 H N N 60 DA HOP2 H N N 61 DA "H5'" H N N 62 DA "H5''" H N N 63 DA "H4'" H N N 64 DA "H3'" H N N 65 DA "HO3'" H N N 66 DA "H2'" H N N 67 DA "H2''" H N N 68 DA "H1'" H N N 69 DA H8 H N N 70 DA H61 H N N 71 DA H62 H N N 72 DA H2 H N N 73 DC OP3 O N N 74 DC P P N N 75 DC OP1 O N N 76 DC OP2 O N N 77 DC "O5'" O N N 78 DC "C5'" C N N 79 DC "C4'" C N R 80 DC "O4'" O N N 81 DC "C3'" C N S 82 DC "O3'" O N N 83 DC "C2'" C N N 84 DC "C1'" C N R 85 DC N1 N N N 86 DC C2 C N N 87 DC O2 O N N 88 DC N3 N N N 89 DC C4 C N N 90 DC N4 N N N 91 DC C5 C N N 92 DC C6 C N N 93 DC HOP3 H N N 94 DC HOP2 H N N 95 DC "H5'" H N N 96 DC "H5''" H N N 97 DC "H4'" H N N 98 DC "H3'" H N N 99 DC "HO3'" H N N 100 DC "H2'" H N N 101 DC "H2''" H N N 102 DC "H1'" H N N 103 DC H41 H N N 104 DC H42 H N N 105 DC H5 H N N 106 DC H6 H N N 107 DG OP3 O N N 108 DG P P N N 109 DG OP1 O N N 110 DG OP2 O N N 111 DG "O5'" O N N 112 DG "C5'" C N N 113 DG "C4'" C N R 114 DG "O4'" O N N 115 DG "C3'" C N S 116 DG "O3'" O N N 117 DG "C2'" C N N 118 DG "C1'" C N R 119 DG N9 N Y N 120 DG C8 C Y N 121 DG N7 N Y N 122 DG C5 C Y N 123 DG C6 C N N 124 DG O6 O N N 125 DG N1 N N N 126 DG C2 C N N 127 DG N2 N N N 128 DG N3 N N N 129 DG C4 C Y N 130 DG HOP3 H N N 131 DG HOP2 H N N 132 DG "H5'" H N N 133 DG "H5''" H N N 134 DG "H4'" H N N 135 DG "H3'" H N N 136 DG "HO3'" H N N 137 DG "H2'" H N N 138 DG "H2''" H N N 139 DG "H1'" H N N 140 DG H8 H N N 141 DG H1 H N N 142 DG H21 H N N 143 DG H22 H N N 144 DT OP3 O N N 145 DT P P N N 146 DT OP1 O N N 147 DT OP2 O N N 148 DT "O5'" O N N 149 DT "C5'" C N N 150 DT "C4'" C N R 151 DT "O4'" O N N 152 DT "C3'" C N S 153 DT "O3'" O N N 154 DT "C2'" C N N 155 DT "C1'" C N R 156 DT N1 N N N 157 DT C2 C N N 158 DT O2 O N N 159 DT N3 N N N 160 DT C4 C N N 161 DT O4 O N N 162 DT C5 C N N 163 DT C7 C N N 164 DT C6 C N N 165 DT HOP3 H N N 166 DT HOP2 H N N 167 DT "H5'" H N N 168 DT "H5''" H N N 169 DT "H4'" H N N 170 DT "H3'" H N N 171 DT "HO3'" H N N 172 DT "H2'" H N N 173 DT "H2''" H N N 174 DT "H1'" H N N 175 DT H3 H N N 176 DT H71 H N N 177 DT H72 H N N 178 DT H73 H N N 179 DT H6 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H N N 183 OMG P P N N 184 OMG OP1 O N N 185 OMG OP2 O N N 186 OMG OP3 O N N 187 OMG "O5'" O N N 188 OMG "C5'" C N N 189 OMG "C4'" C N R 190 OMG "O4'" O N N 191 OMG "C3'" C N R 192 OMG "O3'" O N N 193 OMG "C2'" C N R 194 OMG "O2'" O N N 195 OMG CM2 C N N 196 OMG "C1'" C N R 197 OMG N9 N Y N 198 OMG C8 C Y N 199 OMG N7 N Y N 200 OMG C5 C Y N 201 OMG C6 C N N 202 OMG O6 O N N 203 OMG N1 N N N 204 OMG C2 C N N 205 OMG N2 N N N 206 OMG N3 N N N 207 OMG C4 C Y N 208 OMG HOP2 H N N 209 OMG HOP3 H N N 210 OMG "H5'" H N N 211 OMG "H5''" H N N 212 OMG "H4'" H N N 213 OMG "H3'" H N N 214 OMG "HO3'" H N N 215 OMG "H2'" H N N 216 OMG HM21 H N N 217 OMG HM22 H N N 218 OMG HM23 H N N 219 OMG "H1'" H N N 220 OMG H8 H N N 221 OMG HN1 H N N 222 OMG HN21 H N N 223 OMG HN22 H N N 224 ZN ZN ZN N N 225 # 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 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DC OP3 P sing N N 78 DC OP3 HOP3 sing N N 79 DC P OP1 doub N N 80 DC P OP2 sing N N 81 DC P "O5'" sing N N 82 DC OP2 HOP2 sing N N 83 DC "O5'" "C5'" sing N N 84 DC "C5'" "C4'" sing N N 85 DC "C5'" "H5'" sing N N 86 DC "C5'" "H5''" sing N N 87 DC "C4'" "O4'" sing N N 88 DC "C4'" "C3'" sing N N 89 DC "C4'" "H4'" sing N N 90 DC "O4'" "C1'" sing N N 91 DC "C3'" "O3'" sing N N 92 DC "C3'" "C2'" sing N N 93 DC "C3'" "H3'" sing N N 94 DC "O3'" "HO3'" sing N N 95 DC "C2'" "C1'" sing N N 96 DC "C2'" "H2'" sing N N 97 DC "C2'" "H2''" sing N N 98 DC "C1'" N1 sing N N 99 DC "C1'" "H1'" sing N N 100 DC N1 C2 sing N N 101 DC N1 C6 sing N N 102 DC C2 O2 doub N N 103 DC C2 N3 sing N N 104 DC N3 C4 doub N N 105 DC C4 N4 sing N N 106 DC C4 C5 sing N N 107 DC N4 H41 sing N N 108 DC N4 H42 sing N N 109 DC C5 C6 doub N N 110 DC C5 H5 sing N N 111 DC C6 H6 sing N N 112 DG OP3 P sing N N 113 DG OP3 HOP3 sing N N 114 DG P OP1 doub N N 115 DG P OP2 sing N N 116 DG P "O5'" sing N N 117 DG OP2 HOP2 sing N N 118 DG "O5'" "C5'" sing N N 119 DG "C5'" "C4'" sing N N 120 DG "C5'" "H5'" sing N N 121 DG "C5'" "H5''" sing N N 122 DG "C4'" "O4'" sing N N 123 DG "C4'" "C3'" sing N N 124 DG "C4'" "H4'" sing N N 125 DG "O4'" "C1'" sing N N 126 DG "C3'" "O3'" sing N N 127 DG "C3'" "C2'" sing N N 128 DG "C3'" "H3'" sing N N 129 DG "O3'" "HO3'" sing N N 130 DG "C2'" "C1'" sing N N 131 DG "C2'" "H2'" sing N N 132 DG "C2'" "H2''" sing N N 133 DG "C1'" N9 sing N N 134 DG "C1'" "H1'" sing N N 135 DG N9 C8 sing Y N 136 DG N9 C4 sing Y N 137 DG C8 N7 doub Y N 138 DG C8 H8 sing N N 139 DG N7 C5 sing Y N 140 DG C5 C6 sing N N 141 DG C5 C4 doub Y N 142 DG C6 O6 doub N N 143 DG C6 N1 sing N N 144 DG N1 C2 sing N N 145 DG N1 H1 sing N N 146 DG C2 N2 sing N N 147 DG C2 N3 doub N N 148 DG N2 H21 sing N N 149 DG N2 H22 sing N N 150 DG N3 C4 sing N N 151 DT OP3 P sing N N 152 DT OP3 HOP3 sing N N 153 DT P OP1 doub N N 154 DT P OP2 sing N N 155 DT P "O5'" sing N N 156 DT OP2 HOP2 sing N N 157 DT "O5'" "C5'" sing N N 158 DT "C5'" "C4'" sing N N 159 DT "C5'" "H5'" sing N N 160 DT "C5'" "H5''" sing N N 161 DT "C4'" "O4'" sing N N 162 DT "C4'" "C3'" sing N N 163 DT "C4'" "H4'" sing N N 164 DT "O4'" "C1'" sing N N 165 DT "C3'" "O3'" sing N N 166 DT "C3'" "C2'" sing N N 167 DT "C3'" "H3'" sing N N 168 DT "O3'" "HO3'" sing N N 169 DT "C2'" "C1'" sing N N 170 DT "C2'" "H2'" sing N N 171 DT "C2'" "H2''" sing N N 172 DT "C1'" N1 sing N N 173 DT "C1'" "H1'" sing N N 174 DT N1 C2 sing N N 175 DT N1 C6 sing N N 176 DT C2 O2 doub N N 177 DT C2 N3 sing N N 178 DT N3 C4 sing N N 179 DT N3 H3 sing N N 180 DT C4 O4 doub N N 181 DT C4 C5 sing N N 182 DT C5 C7 sing N N 183 DT C5 C6 doub N N 184 DT C7 H71 sing N N 185 DT C7 H72 sing N N 186 DT C7 H73 sing N N 187 DT C6 H6 sing N N 188 HOH O H1 sing N N 189 HOH O H2 sing N N 190 OMG P OP1 doub N N 191 OMG P OP2 sing N N 192 OMG P OP3 sing N N 193 OMG P "O5'" sing N N 194 OMG OP2 HOP2 sing N N 195 OMG OP3 HOP3 sing N N 196 OMG "O5'" "C5'" sing N N 197 OMG "C5'" "C4'" sing N N 198 OMG "C5'" "H5'" sing N N 199 OMG "C5'" "H5''" sing N N 200 OMG "C4'" "O4'" sing N N 201 OMG "C4'" "C3'" sing N N 202 OMG "C4'" "H4'" sing N N 203 OMG "O4'" "C1'" sing N N 204 OMG "C3'" "O3'" sing N N 205 OMG "C3'" "C2'" sing N N 206 OMG "C3'" "H3'" sing N N 207 OMG "O3'" "HO3'" sing N N 208 OMG "C2'" "O2'" sing N N 209 OMG "C2'" "C1'" sing N N 210 OMG "C2'" "H2'" sing N N 211 OMG "O2'" CM2 sing N N 212 OMG CM2 HM21 sing N N 213 OMG CM2 HM22 sing N N 214 OMG CM2 HM23 sing N N 215 OMG "C1'" N9 sing N N 216 OMG "C1'" "H1'" sing N N 217 OMG N9 C8 sing Y N 218 OMG N9 C4 sing Y N 219 OMG C8 N7 doub Y N 220 OMG C8 H8 sing N N 221 OMG N7 C5 sing Y N 222 OMG C5 C6 sing N N 223 OMG C5 C4 doub Y N 224 OMG C6 O6 doub N N 225 OMG C6 N1 sing N N 226 OMG N1 C2 sing N N 227 OMG N1 HN1 sing N N 228 OMG C2 N2 sing N N 229 OMG C2 N3 doub N N 230 OMG N2 HN21 sing N N 231 OMG N2 HN22 sing N N 232 OMG N3 C4 sing N N 233 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9K8P 'double helix' 9K8P 'b-form double helix' 9K8P 'mismatched base pair' 9K8P '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 DG 17 1_555 A A 19 1_555 6.260 -3.824 1.886 52.428 -18.322 26.116 1 A_DG17:A19_A A 17 ? A 19 ? 11 9 1 B DG 17 1_555 B A 19 1_555 5.947 -4.090 1.527 52.483 -5.968 27.172 2 B_DG17:A19_B B 17 ? B 19 ? 11 9 1 A DG 1 1_555 A DC 26 2_555 0.155 -0.460 -0.382 -11.110 -14.717 -4.492 3 A_DG1:DC26_A A 1 ? A 26 ? 19 1 1 A DG 2 1_555 A DC 25 2_555 -2.148 -0.931 0.731 8.046 -12.756 -12.964 4 A_DG2:DC25_A A 2 ? A 25 ? 19 1 1 A DA 3 1_555 A DT 24 2_555 0.768 -0.197 0.110 -4.126 -8.552 -10.286 5 A_DA3:DT24_A A 3 ? A 24 ? 20 1 1 A DT 4 1_555 A DA 23 2_555 -0.791 -0.105 0.627 -0.061 -10.379 -0.272 6 A_DT4:DA23_A A 4 ? A 23 ? 20 1 1 A DC 5 1_555 A DG 22 2_555 -0.062 0.040 0.336 11.680 -6.303 -4.488 7 A_DC5:DG22_A A 5 ? A 22 ? 19 1 1 A DA 6 1_555 A DG 21 2_555 -0.306 2.215 -0.232 13.223 -36.275 -10.848 8 A_DA6:DG21_A A 6 ? A 21 ? ? ? 1 A DC 8 1_555 A OMG 18 2_555 -0.299 -0.068 0.324 -14.807 -1.230 2.682 9 A_DC8:OMG18_A A 8 ? A 18 ? 19 1 1 A DC 9 1_555 A DG 17 2_555 -0.121 -0.116 -0.308 0.206 -27.092 -3.569 10 A_DC9:DG17_A A 9 ? A 17 ? 19 1 1 A DG 10 1_555 A DC 16 2_555 0.251 0.072 0.010 3.051 2.676 -1.773 11 A_DG10:DC16_A A 10 ? A 16 ? 19 1 1 A DC 11 1_555 A DG 15 2_555 0.585 0.277 0.711 0.445 -0.963 1.116 12 A_DC11:DG15_A A 11 ? A 15 ? 19 1 1 A DG 1 2_555 A DC 26 1_555 0.155 -0.460 -0.382 -11.110 -14.717 -4.492 13 A_DG1:DC26_A A 1 ? A 26 ? 19 1 1 A DG 2 2_555 A DC 25 1_555 -2.148 -0.931 0.731 8.046 -12.756 -12.964 14 A_DG2:DC25_A A 2 ? A 25 ? 19 1 1 A DA 3 2_555 A DT 24 1_555 0.768 -0.197 0.110 -4.126 -8.552 -10.286 15 A_DA3:DT24_A A 3 ? A 24 ? 20 1 1 A DT 4 2_555 A DA 23 1_555 -0.791 -0.105 0.627 -0.061 -10.379 -0.272 16 A_DT4:DA23_A A 4 ? A 23 ? 20 1 1 A DC 5 2_555 A DG 22 1_555 -0.062 0.040 0.336 11.680 -6.303 -4.488 17 A_DC5:DG22_A A 5 ? A 22 ? 19 1 1 A DA 6 2_555 A DG 21 1_555 -0.306 2.215 -0.232 13.223 -36.275 -10.848 18 A_DA6:DG21_A A 6 ? A 21 ? ? ? 1 A DC 8 2_555 A OMG 18 1_555 -0.299 -0.068 0.324 -14.807 -1.230 2.682 19 A_DC8:OMG18_A A 8 ? A 18 ? 19 1 1 A DC 9 2_555 A DG 17 1_555 -0.121 -0.116 -0.308 0.206 -27.092 -3.569 20 A_DC9:DG17_A A 9 ? A 17 ? 19 1 1 A DG 10 2_555 A DC 16 1_555 0.251 0.072 0.010 3.051 2.676 -1.773 21 A_DG10:DC16_A A 10 ? A 16 ? 19 1 1 A DC 11 2_555 A DG 15 1_555 0.585 0.277 0.711 0.445 -0.963 1.116 22 A_DC11:DG15_A A 11 ? A 15 ? 19 1 1 B DG 2 1_555 B DC 25 2_655 -1.536 -0.863 0.174 13.043 -7.150 -14.304 23 B_DG2:DC25_B B 2 ? B 25 ? 19 1 1 B DA 3 1_555 B DT 24 2_655 0.108 -0.129 0.028 -15.872 -13.485 -7.793 24 B_DA3:DT24_B B 3 ? B 24 ? 20 1 1 B DT 4 1_555 B DA 23 2_655 -0.482 -0.112 0.468 -8.352 -2.136 -1.760 25 B_DT4:DA23_B B 4 ? B 23 ? 20 1 1 B DC 5 1_555 B DG 22 2_655 1.753 -0.400 0.284 7.922 -13.309 17.636 26 B_DC5:DG22_B B 5 ? B 22 ? 19 1 1 B DG 2 2_655 B DC 25 1_555 -1.536 -0.863 0.174 13.043 -7.150 -14.304 27 B_DG2:DC25_B B 2 ? B 25 ? 19 1 1 B DA 3 2_655 B DT 24 1_555 0.108 -0.129 0.028 -15.872 -13.485 -7.793 28 B_DA3:DT24_B B 3 ? B 24 ? 20 1 1 B DT 4 2_655 B DA 23 1_555 -0.482 -0.112 0.468 -8.352 -2.136 -1.760 29 B_DT4:DA23_B B 4 ? B 23 ? 20 1 1 B DC 5 2_655 B DG 22 1_555 1.753 -0.400 0.284 7.922 -13.309 17.636 30 B_DC5:DG22_B B 5 ? B 22 ? 19 1 1 B DC 8 1_555 B OMG 18 2_655 -0.211 -0.038 0.058 -14.163 -1.274 0.887 31 B_DC8:OMG18_B B 8 ? B 18 ? 19 1 1 B DC 9 1_555 B DG 17 2_655 -0.144 -0.263 -0.143 -1.508 -19.936 -4.571 32 B_DC9:DG17_B B 9 ? B 17 ? 19 1 1 B DG 10 1_555 B DC 16 2_655 -0.360 -0.109 -0.180 4.408 -2.258 -0.334 33 B_DG10:DC16_B B 10 ? B 16 ? 19 1 1 B DC 11 1_555 B DG 15 2_655 -0.093 0.421 0.800 0.924 0.800 3.429 34 B_DC11:DG15_B B 11 ? B 15 ? 19 1 1 B DG 12 1_555 B DA 13 2_655 7.029 -5.948 -0.116 32.405 -0.675 -16.023 35 B_DG12:DA13_B B 12 ? B 13 ? ? ? 1 B DA 13 1_555 B DG 12 2_655 -7.029 -5.948 -0.116 -32.405 -0.675 -16.023 36 B_DA13:DG12_B B 13 ? B 12 ? ? ? 1 B DG 15 1_555 B DC 11 2_655 0.093 0.421 0.800 -0.924 0.800 3.429 37 B_DG15:DC11_B B 15 ? B 11 ? 19 1 1 B DC 16 1_555 B DG 10 2_655 0.360 -0.109 -0.180 -4.408 -2.258 -0.334 38 B_DC16:DG10_B B 16 ? B 10 ? 19 1 1 B DG 17 1_555 B DC 9 2_655 0.144 -0.263 -0.143 1.508 -19.936 -4.571 39 B_DG17:DC9_B B 17 ? B 9 ? 19 1 1 B OMG 18 1_555 B DC 8 2_655 0.211 -0.038 0.058 14.163 -1.274 0.887 40 B_OMG18:DC8_B B 18 ? B 8 ? 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 DG 1 1_555 A DC 26 2_555 A DG 2 1_555 A DC 25 2_555 0.108 -1.032 2.676 -12.960 11.206 28.148 -3.282 -1.877 1.915 20.784 24.037 32.862 1 AA_DG1DG2:DC25DC26_AA A 1 ? A 26 ? A 2 ? A 25 ? 1 A DG 2 1_555 A DC 25 2_555 A DA 3 1_555 A DT 24 2_555 -0.110 -1.009 3.814 3.282 -0.282 45.624 -1.269 0.474 3.804 -0.364 -4.226 45.736 2 AA_DG2DA3:DT24DC25_AA A 2 ? A 25 ? A 3 ? A 24 ? 1 A DA 3 1_555 A DT 24 2_555 A DT 4 1_555 A DA 23 2_555 -0.059 -1.068 3.310 -4.410 11.452 21.479 -5.768 -1.122 2.404 27.979 10.774 24.702 3 AA_DA3DT4:DA23DT24_AA A 3 ? A 24 ? A 4 ? A 23 ? 1 A DT 4 1_555 A DA 23 2_555 A DC 5 1_555 A DG 22 2_555 -0.005 -0.588 3.053 -2.701 -1.195 32.506 -0.852 -0.431 3.063 -2.130 4.813 32.637 4 AA_DT4DC5:DG22DA23_AA A 4 ? A 23 ? A 5 ? A 22 ? 1 A DC 5 1_555 A DG 22 2_555 A DA 6 1_555 A DG 21 2_555 -0.088 -0.248 3.282 6.908 7.699 36.336 -1.374 1.025 3.100 12.048 -10.810 37.731 5 AA_DC5DA6:DG21DG22_AA A 5 ? A 22 ? A 6 ? A 21 ? 1 A DA 6 1_555 A DG 21 2_555 A DC 8 1_555 A OMG 18 2_555 1.981 3.431 3.608 -3.697 -21.767 84.667 2.968 -1.520 2.766 -15.928 2.705 86.970 6 AA_DA6DC8:OMG18DG21_AA A 6 ? A 21 ? A 8 ? A 18 ? 1 A DC 8 1_555 A OMG 18 2_555 A DC 9 1_555 A DG 17 2_555 -1.331 0.203 2.828 1.816 -2.282 35.382 0.617 2.410 2.741 -3.747 -2.982 35.498 7 AA_DC8DC9:DG17OMG18_AA A 8 ? A 18 ? A 9 ? A 17 ? 1 A DC 9 1_555 A DG 17 2_555 A DG 10 1_555 A DC 16 2_555 1.238 1.231 3.422 -0.690 3.648 38.607 1.381 -1.954 3.497 5.502 1.041 38.779 8 AA_DC9DG10:DC16DG17_AA A 9 ? A 17 ? A 10 ? A 16 ? 1 A DG 10 1_555 A DC 16 2_555 A DC 11 1_555 A DG 15 2_555 -0.270 -0.342 3.456 -6.478 3.356 31.647 -1.236 -0.722 3.390 6.054 11.685 32.456 9 AA_DG10DC11:DG15DC16_AA A 10 ? A 16 ? A 11 ? A 15 ? 1 A DG 1 2_555 A DC 26 1_555 A DG 2 2_555 A DC 25 1_555 0.108 -1.032 2.676 -12.960 11.206 28.148 -3.282 -1.877 1.915 20.784 24.037 32.862 10 AA_DG1DG2:DC25DC26_AA A 1 ? A 26 ? A 2 ? A 25 ? 1 A DG 2 2_555 A DC 25 1_555 A DA 3 2_555 A DT 24 1_555 -0.110 -1.009 3.814 3.282 -0.282 45.624 -1.269 0.474 3.804 -0.364 -4.226 45.736 11 AA_DG2DA3:DT24DC25_AA A 2 ? A 25 ? A 3 ? A 24 ? 1 A DA 3 2_555 A DT 24 1_555 A DT 4 2_555 A DA 23 1_555 -0.059 -1.068 3.310 -4.410 11.452 21.479 -5.768 -1.122 2.404 27.979 10.774 24.702 12 AA_DA3DT4:DA23DT24_AA A 3 ? A 24 ? A 4 ? A 23 ? 1 A DT 4 2_555 A DA 23 1_555 A DC 5 2_555 A DG 22 1_555 -0.005 -0.588 3.053 -2.701 -1.195 32.506 -0.852 -0.431 3.063 -2.130 4.813 32.637 13 AA_DT4DC5:DG22DA23_AA A 4 ? A 23 ? A 5 ? A 22 ? 1 A DC 5 2_555 A DG 22 1_555 A DA 6 2_555 A DG 21 1_555 -0.088 -0.248 3.282 6.908 7.699 36.336 -1.374 1.025 3.100 12.048 -10.810 37.731 14 AA_DC5DA6:DG21DG22_AA A 5 ? A 22 ? A 6 ? A 21 ? 1 A DA 6 2_555 A DG 21 1_555 A DC 8 2_555 A OMG 18 1_555 1.981 3.431 3.608 -3.697 -21.767 84.667 2.968 -1.520 2.766 -15.928 2.705 86.970 15 AA_DA6DC8:OMG18DG21_AA A 6 ? A 21 ? A 8 ? A 18 ? 1 A DC 8 2_555 A OMG 18 1_555 A DC 9 2_555 A DG 17 1_555 -1.331 0.203 2.828 1.816 -2.282 35.382 0.617 2.410 2.741 -3.747 -2.982 35.498 16 AA_DC8DC9:DG17OMG18_AA A 8 ? A 18 ? A 9 ? A 17 ? 1 A DC 9 2_555 A DG 17 1_555 A DG 10 2_555 A DC 16 1_555 1.238 1.231 3.422 -0.690 3.648 38.607 1.381 -1.954 3.497 5.502 1.041 38.779 17 AA_DC9DG10:DC16DG17_AA A 9 ? A 17 ? A 10 ? A 16 ? 1 A DG 10 2_555 A DC 16 1_555 A DC 11 2_555 A DG 15 1_555 -0.270 -0.342 3.456 -6.478 3.356 31.647 -1.236 -0.722 3.390 6.054 11.685 32.456 18 AA_DG10DC11:DG15DC16_AA A 10 ? A 16 ? A 11 ? A 15 ? 1 B DG 2 1_555 B DC 25 2_655 B DA 3 1_555 B DT 24 2_655 0.508 -1.267 4.088 1.308 7.317 41.220 -2.708 -0.545 3.832 10.292 -1.840 41.856 19 BB_DG2DA3:DT24DC25_BB B 2 ? B 25 ? B 3 ? B 24 ? 1 B DA 3 1_555 B DT 24 2_655 B DT 4 1_555 B DA 23 2_655 -0.003 -0.805 3.221 -2.297 9.106 26.289 -3.726 -0.512 2.782 19.257 4.858 27.888 20 BB_DA3DT4:DA23DT24_BB B 3 ? B 24 ? B 4 ? B 23 ? 1 B DT 4 1_555 B DA 23 2_655 B DC 5 1_555 B DG 22 2_655 0.625 -0.249 3.041 -0.847 1.723 45.318 -0.465 -0.880 3.018 2.235 1.099 45.357 21 BB_DT4DC5:DG22DA23_BB B 4 ? B 23 ? B 5 ? B 22 ? 1 B DG 2 2_655 B DC 25 1_555 B DA 3 2_655 B DT 24 1_555 0.508 -1.267 4.088 1.308 7.317 41.220 -2.708 -0.545 3.832 10.292 -1.840 41.856 22 BB_DG2DA3:DT24DC25_BB B 2 ? B 25 ? B 3 ? B 24 ? 1 B DA 3 2_655 B DT 24 1_555 B DT 4 2_655 B DA 23 1_555 -0.003 -0.805 3.221 -2.297 9.106 26.289 -3.726 -0.512 2.782 19.257 4.858 27.888 23 BB_DA3DT4:DA23DT24_BB B 3 ? B 24 ? B 4 ? B 23 ? 1 B DT 4 2_655 B DA 23 1_555 B DC 5 2_655 B DG 22 1_555 0.625 -0.249 3.041 -0.847 1.723 45.318 -0.465 -0.880 3.018 2.235 1.099 45.357 24 BB_DT4DC5:DG22DA23_BB B 4 ? B 23 ? B 5 ? B 22 ? 1 B DC 8 1_555 B OMG 18 2_655 B DC 9 1_555 B DG 17 2_655 -1.214 0.130 2.942 -1.992 -5.686 32.824 1.083 1.816 2.945 -9.957 3.489 33.358 25 BB_DC8DC9:DG17OMG18_BB B 8 ? B 18 ? B 9 ? B 17 ? 1 B DC 9 1_555 B DG 17 2_655 B DG 10 1_555 B DC 16 2_655 1.402 1.179 3.306 4.028 6.143 34.771 0.976 -1.671 3.591 10.139 -6.648 35.515 26 BB_DC9DG10:DC16DG17_BB B 9 ? B 17 ? B 10 ? B 16 ? 1 B DG 10 1_555 B DC 16 2_655 B DC 11 1_555 B DG 15 2_655 -0.043 -0.211 3.487 -11.591 3.615 33.385 -0.912 -1.744 3.281 6.049 19.396 35.466 27 BB_DG10DC11:DG15DC16_BB B 10 ? B 16 ? B 11 ? B 15 ? 1 B DC 11 1_555 B DG 15 2_655 B DG 12 1_555 B DA 13 2_655 0.475 1.692 4.856 -0.925 19.565 83.203 0.555 -0.385 5.083 14.557 0.688 85.067 28 BB_DC11DG12:DA13DG15_BB B 11 ? B 15 ? B 12 ? B 13 ? 1 B DG 12 1_555 B DA 13 2_655 B DA 13 1_555 B DG 12 2_655 0.000 -0.902 4.883 0.000 7.123 -18.611 -2.567 0.000 4.886 -21.053 0.000 -19.917 29 BB_DG12DA13:DG12DA13_BB B 12 ? B 13 ? B 13 ? B 12 ? 1 B DA 13 1_555 B DG 12 2_655 B DG 15 1_555 B DC 11 2_655 -0.475 1.692 4.856 0.925 19.565 83.203 0.555 0.385 5.083 14.557 -0.688 85.067 30 BB_DA13DG15:DC11DG12_BB B 13 ? B 12 ? B 15 ? B 11 ? 1 B DG 15 1_555 B DC 11 2_655 B DC 16 1_555 B DG 10 2_655 0.043 -0.211 3.487 11.591 3.615 33.385 -0.912 1.744 3.281 6.049 -19.396 35.466 31 BB_DG15DC16:DG10DC11_BB B 15 ? B 11 ? B 16 ? B 10 ? 1 B DC 16 1_555 B DG 10 2_655 B DG 17 1_555 B DC 9 2_655 -1.402 1.179 3.306 -4.028 6.143 34.771 0.976 1.671 3.591 10.139 6.648 35.515 32 BB_DC16DG17:DC9DG10_BB B 16 ? B 10 ? B 17 ? B 9 ? 1 B DG 17 1_555 B DC 9 2_655 B OMG 18 1_555 B DC 8 2_655 1.214 0.130 2.942 1.992 -5.686 32.824 1.083 -1.816 2.945 -9.957 -3.489 33.358 33 BB_DG17OMG18:DC8DC9_BB B 17 ? B 9 ? B 18 ? B 8 ? # _pdbx_audit_support.funding_organization 'Not funded' _pdbx_audit_support.country ? _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _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 9K8O _pdbx_initial_refinement_model.details 'crystal structure of a related molecule' # _atom_sites.entry_id 9K8P _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.014685 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004475 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.019848 _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] 0.020345 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O P ZN # loop_ #