data_8XP9 # _entry.id 8XP9 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.395 _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 8XP9 pdb_00008xp9 10.2210/pdb8xp9/pdb WWPDB D_1300043801 ? ? # 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 2024-05-29 2 'Structure model' 1 1 2024-08-14 3 'Structure model' 1 2 2024-08-28 # _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' 'Database references' 2 3 'Structure model' 'Database references' # 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 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 3 'Structure model' citation_author # 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 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.pdbx_database_id_DOI' 7 2 'Structure model' '_citation.pdbx_database_id_PubMed' 8 2 'Structure model' '_citation.title' 9 2 'Structure model' '_citation.year' 10 3 'Structure model' '_citation.journal_volume' 11 3 'Structure model' '_citation.page_first' 12 3 'Structure model' '_citation.page_last' 13 3 'Structure model' '_citation_author.identifier_ORCID' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8XP9 _pdbx_database_status.recvd_initial_deposition_date 2024-01-03 _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 # _pdbx_contact_author.id 2 _pdbx_contact_author.email mhho@dragon.nchu.edu.tw _pdbx_contact_author.name_first Ming-Hon _pdbx_contact_author.name_last Hou _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4170-1527 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Hou, M.H.' 1 0000-0003-4170-1527 'Lin, S.M.' 2 0000-0001-7813-9000 'Lin, Y.J.' 3 ? 'Neidle, S.' 4 0000-0003-0622-6548 # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 52 _citation.language ? _citation.page_first 8566 _citation.page_last 8579 _citation.title 'Structural basis of water-mediated cis Watson-Crick/Hoogsteen base-pair formation in non-CpG methylation.' _citation.year 2024 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkae594 _citation.pdbx_database_id_PubMed 38989613 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Lin, S.M.' 1 ? primary 'Huang, H.T.' 2 ? primary 'Fang, P.J.' 3 ? primary 'Chang, C.F.' 4 ? primary 'Satange, R.' 5 ? primary 'Chang, C.K.' 6 ? primary 'Chou, S.H.' 7 ? primary 'Neidle, S.' 8 ? primary 'Hou, M.H.' 9 ? # 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 ;DNA (5'-D(P*AP*CP*GP*CP*CP*GP*T)-3') ; 2098.399 4 ? ? ? 'un-liganded CG' 2 polymer syn ;DNA (5'-D(P*AP*CP*GP*GP*CP*GP*T)-3') ; 2138.423 4 ? ? ? ? 3 water nat water 18.015 12 ? ? ? ? # 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 polydeoxyribonucleotide no no '(DA)(DC)(DG)(DC)(DC)(DG)(DT)' ACGCCGT F,H,A,C ? 2 polydeoxyribonucleotide no no '(DA)(DC)(DG)(DG)(DC)(DG)(DT)' ACGGCGT G,I,D,B ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DC n 1 3 DG n 1 4 DC n 1 5 DC n 1 6 DG n 1 7 DT n 2 1 DA n 2 2 DC n 2 3 DG n 2 4 DG n 2 5 DC n 2 6 DG n 2 7 DT 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 1 7 'synthetic construct' ? 32630 ? 2 1 sample 1 7 'synthetic construct' ? 32630 ? # 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 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 # 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 DA 1 1 1 DA DA F . n A 1 2 DC 2 2 2 DC DC F . n A 1 3 DG 3 3 3 DG DG F . n A 1 4 DC 4 4 4 DC DC F . n A 1 5 DC 5 5 5 DC DC F . n A 1 6 DG 6 6 6 DG DG F . n A 1 7 DT 7 7 7 DT DT F . n B 2 1 DA 1 1 1 DA DA G . n B 2 2 DC 2 2 2 DC DC G . n B 2 3 DG 3 3 3 DG DG G . n B 2 4 DG 4 4 4 DG DG G . n B 2 5 DC 5 5 5 DC DC G . n B 2 6 DG 6 6 6 DG DG G . n B 2 7 DT 7 7 7 DT DT G . n C 1 1 DA 1 1 1 DA DA H . n C 1 2 DC 2 2 2 DC DC H . n C 1 3 DG 3 3 3 DG DG H . n C 1 4 DC 4 4 4 DC DC H . n C 1 5 DC 5 5 5 DC DC H . n C 1 6 DG 6 6 6 DG DG H . n C 1 7 DT 7 7 7 DT DT H . n D 2 1 DA 1 1 1 DA DA I . n D 2 2 DC 2 2 2 DC DC I . n D 2 3 DG 3 3 3 DG DG I . n D 2 4 DG 4 4 4 DG DG I . n D 2 5 DC 5 5 5 DC DC I . n D 2 6 DG 6 6 6 DG DG I . n D 2 7 DT 7 7 7 DT DT I . n E 1 1 DA 1 1 1 DA DA A . n E 1 2 DC 2 2 2 DC DC A . n E 1 3 DG 3 3 3 DG DG A . n E 1 4 DC 4 4 4 DC DC A . n E 1 5 DC 5 5 5 DC DC A . n E 1 6 DG 6 6 6 DG DG A . n E 1 7 DT 7 7 7 DT DT A . n F 2 1 DA 1 1 1 DA DA D . n F 2 2 DC 2 2 2 DC DC D . n F 2 3 DG 3 3 3 DG DG D . n F 2 4 DG 4 4 4 DG DG D . n F 2 5 DC 5 5 5 DC DC D . n F 2 6 DG 6 6 6 DG DG D . n F 2 7 DT 7 7 7 DT DT D . n G 2 1 DA 1 1 1 DA DA B . n G 2 2 DC 2 2 2 DC DC B . n G 2 3 DG 3 3 3 DG DG B . n G 2 4 DG 4 4 4 DG DG B . n G 2 5 DC 5 5 5 DC DC B . n G 2 6 DG 6 6 6 DG DG B . n G 2 7 DT 7 7 7 DT DT B . n H 1 1 DA 1 1 1 DA DA C . n H 1 2 DC 2 2 2 DC DC C . n H 1 3 DG 3 3 3 DG DG C . n H 1 4 DC 4 4 4 DC DC C . n H 1 5 DC 5 5 5 DC DC C . n H 1 6 DG 6 6 6 DG DG C . n H 1 7 DT 7 7 7 DT DT 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 I 3 HOH 1 101 23 HOH HOH F . J 3 HOH 1 101 8 HOH HOH G . J 3 HOH 2 102 18 HOH HOH G . K 3 HOH 1 101 17 HOH HOH H . K 3 HOH 2 102 14 HOH HOH H . K 3 HOH 3 103 15 HOH HOH H . L 3 HOH 1 101 21 HOH HOH I . L 3 HOH 2 102 19 HOH HOH I . M 3 HOH 1 101 6 HOH HOH A . M 3 HOH 2 102 9 HOH HOH A . N 3 HOH 1 101 1 HOH HOH D . O 3 HOH 1 101 22 HOH HOH B . # 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 ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? '(1.20.1_4487: ???)' 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 4 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8XP9 _cell.details ? _cell.formula_units_Z ? _cell.length_a 46.613 _cell.length_a_esd ? _cell.length_b 46.690 _cell.length_b_esd ? _cell.length_c 75.106 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 16 _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 8XP9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _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 8XP9 _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 2.41 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 48.99 _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, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _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 '0.5mM CG duplex was mixed in a solution containing 50mM MES (pH=6.5), 1mM Spermine HCl, 20% PEG 400' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 293.15 # _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 CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'RAYONIX MX300HE' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-04-14 _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 1.00000 _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 'NSRRC BEAMLINE BL15A1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.00000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL15A1 _diffrn_source.pdbx_synchrotron_site NSRRC # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8XP9 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.34 _reflns.d_resolution_low 30.00 _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 7178 _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 98.5 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 6.6 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 14.6 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.045 _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 0.060 _reflns.pdbx_Rpim_I_all 0.024 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.055 _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 ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _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 _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 _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 _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split _reflns_shell.percent_possible_all _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _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 2.35 2.43 ? ? ? ? ? ? 679 ? ? ? ? ? ? ? ? ? ? ? 5.7 0.999 ? ? 0.684 0.273 ? 1 1 0.907 0.975 ? 96.2 ? 0.624 ? ? ? ? ? ? ? ? ? 2.43 2.53 ? ? ? ? ? ? 678 ? ? ? ? ? ? ? ? ? ? ? 6.2 1.045 ? ? 0.575 0.221 ? 2 1 0.912 0.977 ? 97.3 ? 0.529 ? ? ? ? ? ? ? ? ? 2.53 2.65 ? ? ? ? ? ? 706 ? ? ? ? ? ? ? ? ? ? ? 6.8 1.081 ? ? 0.434 0.164 ? 3 1 0.968 0.992 ? 99.3 ? 0.401 ? ? ? ? ? ? ? ? ? 2.65 2.79 ? ? ? ? ? ? 724 ? ? ? ? ? ? ? ? ? ? ? 7.1 1.097 ? ? 0.311 0.116 ? 4 1 0.985 0.996 ? 99.7 ? 0.288 ? ? ? ? ? ? ? ? ? 2.79 2.96 ? ? ? ? ? ? 715 ? ? ? ? ? ? ? ? ? ? ? 7.2 1.061 ? ? 0.191 0.071 ? 5 1 0.997 0.999 ? 99.7 ? 0.177 ? ? ? ? ? ? ? ? ? 2.96 3.19 ? ? ? ? ? ? 711 ? ? ? ? ? ? ? ? ? ? ? 7.1 1.042 ? ? 0.109 0.041 ? 6 1 0.999 1.000 ? 99.9 ? 0.101 ? ? ? ? ? ? ? ? ? 3.19 3.51 ? ? ? ? ? ? 711 ? ? ? ? ? ? ? ? ? ? ? 6.9 1.065 ? ? 0.047 0.020 ? 7 1 0.998 1.000 ? 98.3 ? 0.042 ? ? ? ? ? ? ? ? ? 3.51 4.02 ? ? ? ? ? ? 746 ? ? ? ? ? ? ? ? ? ? ? 6.8 0.999 ? ? 0.048 0.019 ? 8 1 0.999 1.000 ? 99.7 ? 0.044 ? ? ? ? ? ? ? ? ? 4.02 5.06 ? ? ? ? ? ? 732 ? ? ? ? ? ? ? ? ? ? ? 6.4 0.979 ? ? 0.041 0.016 ? 9 1 0.999 1.000 ? 98.8 ? 0.037 ? ? ? ? ? ? ? ? ? 5.06 10 ? ? ? ? ? ? 776 ? ? ? ? ? ? ? ? ? ? ? 5.9 1.072 ? ? 0.038 0.015 ? 10 1 0.999 1.000 ? 96.0 ? 0.035 ? ? ? ? ? ? ? ? ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _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 8XP9 _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 2.34 _refine.ls_d_res_low 22.06 _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 7058 _refine.ls_number_reflns_R_free 710 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 96.78 _refine.ls_percent_reflns_R_free 10.06 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2563 _refine.ls_R_factor_R_free 0.2706 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2546 _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 'FLAT BULK SOLVENT MODEL' _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 1.35 _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 NONE _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.10 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _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 43.36 _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 ? _refine.overall_SU_ML 0.48 _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 LAST _refine_hist.details ? _refine_hist.d_res_high 2.34 _refine_hist.d_res_low 22.06 _refine_hist.number_atoms_solvent 12 _refine_hist.number_atoms_total 1136 _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 1124 _refine_hist.pdbx_number_atoms_ligand 0 _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' ? 0.010 ? ? ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.304 ? ? ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 33.194 ? 528 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.111 ? 216 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.009 ? 56 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _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 _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 _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 'X-RAY DIFFRACTION' 2.34 2.52 . . 133 1180 93.00 . . . . 0.3840 . . . . . . . . . . . 0.4534 'X-RAY DIFFRACTION' 2.52 2.77 . . 141 1291 99.00 . . . . 0.3841 . . . . . . . . . . . 0.4594 'X-RAY DIFFRACTION' 2.77 3.17 . . 140 1266 98.00 . . . . 0.3612 . . . . . . . . . . . 0.3636 'X-RAY DIFFRACTION' 3.18 4.00 . . 144 1259 95.00 . . . . 0.2618 . . . . . . . . . . . 0.2707 'X-RAY DIFFRACTION' 4.00 22.06 . . 152 1352 98.00 . . . . 0.1867 . . . . . . . . . . . 0.2025 # _struct.entry_id 8XP9 _struct.title 'Crystal structure of d(ACGCCGT/ACGGCGT)' _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 8XP9 _struct_keywords.text 'naked DNA duplex, DNA' _struct_keywords.pdbx_keywords DNA # 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 1 ? D N N 2 ? E N N 1 ? F N N 2 ? G N N 2 ? H N N 1 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 3 ? N N N 3 ? O N N 3 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 8XP9 8XP9 ? 1 ? 1 2 PDB 8XP9 8XP9 ? 2 ? 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 8XP9 F 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 2 2 8XP9 G 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 3 1 8XP9 H 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 4 2 8XP9 I 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 5 1 8XP9 A 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 6 2 8XP9 D 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 7 2 8XP9 B 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 8 1 8XP9 C 1 ? 7 ? 8XP9 1 ? 7 ? 1 7 # 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 3 author_and_software_defined_assembly PISA dimeric 2 4 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)' 640 ? 1 MORE -4 ? 1 'SSA (A^2)' 2800 ? 2 'ABSA (A^2)' 640 ? 2 MORE -3 ? 2 'SSA (A^2)' 2790 ? 3 'ABSA (A^2)' 650 ? 3 MORE -4 ? 3 'SSA (A^2)' 2780 ? 4 'ABSA (A^2)' 650 ? 4 MORE -4 ? 4 'SSA (A^2)' 2790 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,I,J 2 1 C,D,K,L 3 1 E,F,M,N 4 1 G,H,O # _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_ _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 hydrog1 hydrog ? ? E DA 1 N1 ? ? ? 1_555 F DT 7 N3 ? ? A DA 1 D DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? E DA 1 N6 ? ? ? 1_555 F DT 7 O4 ? ? A DA 1 D DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? E DC 2 N3 ? ? ? 1_555 F DG 6 N1 ? ? A DC 2 D DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? E DC 2 N4 ? ? ? 1_555 F DG 6 O6 ? ? A DC 2 D DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? E DC 2 O2 ? ? ? 1_555 F DG 6 N2 ? ? A DC 2 D DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? E DG 3 N1 ? ? ? 1_555 F DC 5 N3 ? ? A DG 3 D DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? E DG 3 N2 ? ? ? 1_555 F DC 5 O2 ? ? A DG 3 D DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? E DG 3 O6 ? ? ? 1_555 F DC 5 N4 ? ? A DG 3 D DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? E DC 4 N3 ? ? ? 1_555 F DG 4 N1 ? ? A DC 4 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? E DC 4 N4 ? ? ? 1_555 F DG 4 O6 ? ? A DC 4 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? E DC 4 O2 ? ? ? 1_555 F DG 4 N2 ? ? A DC 4 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? E DC 5 N3 ? ? ? 1_555 F DG 3 N1 ? ? A DC 5 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? E DC 5 N4 ? ? ? 1_555 F DG 3 O6 ? ? A DC 5 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? E DC 5 O2 ? ? ? 1_555 F DG 3 N2 ? ? A DC 5 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? E DG 6 N1 ? ? ? 1_555 F DC 2 N3 ? ? A DG 6 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? E DG 6 N2 ? ? ? 1_555 F DC 2 O2 ? ? A DG 6 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? E DG 6 O6 ? ? ? 1_555 F DC 2 N4 ? ? A DG 6 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? E DT 7 N3 ? ? ? 1_555 F DA 1 N1 ? ? A DT 7 D DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? E DT 7 O4 ? ? ? 1_555 F DA 1 N6 ? ? A DT 7 D DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? G DA 1 N1 ? ? ? 1_555 H DT 7 N3 ? ? B DA 1 C DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? G DA 1 N6 ? ? ? 1_555 H DT 7 O4 ? ? B DA 1 C DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? G DC 2 N3 ? ? ? 1_555 H DG 6 N1 ? ? B DC 2 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? G DC 2 N4 ? ? ? 1_555 H DG 6 O6 ? ? B DC 2 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? G DC 2 O2 ? ? ? 1_555 H DG 6 N2 ? ? B DC 2 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? G DG 3 N1 ? ? ? 1_555 H DC 5 N3 ? ? B DG 3 C DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? G DG 3 N2 ? ? ? 1_555 H DC 5 O2 ? ? B DG 3 C DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? G DG 3 O6 ? ? ? 1_555 H DC 5 N4 ? ? B DG 3 C DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? G DG 4 N1 ? ? ? 1_555 H DC 4 N3 ? ? B DG 4 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? G DG 4 N2 ? ? ? 1_555 H DC 4 O2 ? ? B DG 4 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? G DG 4 O6 ? ? ? 1_555 H DC 4 N4 ? ? B DG 4 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? G DC 5 N3 ? ? ? 1_555 H DG 3 N1 ? ? B DC 5 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? G DC 5 N4 ? ? ? 1_555 H DG 3 O6 ? ? B DC 5 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? G DC 5 O2 ? ? ? 1_555 H DG 3 N2 ? ? B DC 5 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? G DG 6 N1 ? ? ? 1_555 H DC 2 N3 ? ? B DG 6 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? G DG 6 N2 ? ? ? 1_555 H DC 2 O2 ? ? B DG 6 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? G DG 6 O6 ? ? ? 1_555 H DC 2 N4 ? ? B DG 6 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? G DT 7 N3 ? ? ? 1_555 H DA 1 N1 ? ? B DT 7 C DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? G DT 7 O4 ? ? ? 1_555 H DA 1 N6 ? ? B DT 7 C DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A DA 1 N1 ? ? ? 1_555 B DT 7 N3 ? ? F DA 1 G DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A DA 1 N6 ? ? ? 1_555 B DT 7 O4 ? ? F DA 1 G DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 6 N1 ? ? F DC 2 G DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 6 O6 ? ? F DC 2 G DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 6 N2 ? ? F DC 2 G DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 5 N3 ? ? F DG 3 G DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 5 O2 ? ? F DG 3 G DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 5 N4 ? ? F DG 3 G DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 4 N1 ? ? F DC 4 G DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 4 O6 ? ? F DC 4 G DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 4 N2 ? ? F DC 4 G DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 3 N1 ? ? F DC 5 G DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 3 O6 ? ? F DC 5 G DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 3 N2 ? ? F DC 5 G DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 2 N3 ? ? F DG 6 G DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 2 O2 ? ? F DG 6 G DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 2 N4 ? ? F DG 6 G DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 1 N1 ? ? F DT 7 G DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 1 N6 ? ? F DT 7 G DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C DA 1 N1 ? ? ? 1_555 D DT 7 N3 ? ? H DA 1 I DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C DA 1 N6 ? ? ? 1_555 D DT 7 O4 ? ? H DA 1 I DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C DC 2 N3 ? ? ? 1_555 D DG 6 N1 ? ? H DC 2 I DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C DC 2 N4 ? ? ? 1_555 D DG 6 O6 ? ? H DC 2 I DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C DC 2 O2 ? ? ? 1_555 D DG 6 N2 ? ? H DC 2 I DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C DG 3 N1 ? ? ? 1_555 D DC 5 N3 ? ? H DG 3 I DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C DG 3 N2 ? ? ? 1_555 D DC 5 O2 ? ? H DG 3 I DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C DG 3 O6 ? ? ? 1_555 D DC 5 N4 ? ? H DG 3 I DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? C DC 4 N3 ? ? ? 1_555 D DG 4 N1 ? ? H DC 4 I DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? C DC 4 N4 ? ? ? 1_555 D DG 4 O6 ? ? H DC 4 I DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? C DC 4 O2 ? ? ? 1_555 D DG 4 N2 ? ? H DC 4 I DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 3 N1 ? ? H DC 5 I DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 3 O6 ? ? H DC 5 I DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 3 N2 ? ? H DC 5 I DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? C DG 6 N1 ? ? ? 1_555 D DC 2 N3 ? ? H DG 6 I DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? C DG 6 N2 ? ? ? 1_555 D DC 2 O2 ? ? H DG 6 I DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? C DG 6 O6 ? ? ? 1_555 D DC 2 N4 ? ? H DG 6 I DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? C DT 7 N3 ? ? ? 1_555 D DA 1 N1 ? ? H DT 7 I DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? C DT 7 O4 ? ? ? 1_555 D DA 1 N6 ? ? H DT 7 I DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 G _pdbx_validate_rmsd_bond.auth_comp_id_1 DG _pdbx_validate_rmsd_bond.auth_seq_id_1 6 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "C3'" _pdbx_validate_rmsd_bond.auth_asym_id_2 G _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 6 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.372 _pdbx_validate_rmsd_bond.bond_target_value 1.419 _pdbx_validate_rmsd_bond.bond_deviation -0.047 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.006 _pdbx_validate_rmsd_bond.linker_flag N # _pdbx_distant_solvent_atoms.id 1 _pdbx_distant_solvent_atoms.PDB_model_num 1 _pdbx_distant_solvent_atoms.auth_atom_id O _pdbx_distant_solvent_atoms.label_alt_id ? _pdbx_distant_solvent_atoms.auth_asym_id F _pdbx_distant_solvent_atoms.auth_comp_id HOH _pdbx_distant_solvent_atoms.auth_seq_id 101 _pdbx_distant_solvent_atoms.PDB_ins_code ? _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 6.45 _pdbx_distant_solvent_atoms.neighbor_ligand_distance . # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8XP9 'double helix' 8XP9 'b-form double helix' # 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 DA 1 1_555 B DT 7 1_555 0.052 -0.108 0.123 -0.363 -11.408 1.741 1 F_DA1:DT7_G F 1 ? G 7 ? 20 1 1 A DC 2 1_555 B DG 6 1_555 0.300 -0.122 0.239 -1.472 -14.343 1.936 2 F_DC2:DG6_G F 2 ? G 6 ? 19 1 1 A DG 3 1_555 B DC 5 1_555 -0.245 -0.173 0.344 3.023 -15.675 2.959 3 F_DG3:DC5_G F 3 ? G 5 ? 19 1 1 A DC 4 1_555 B DG 4 1_555 0.104 -0.095 0.447 -4.165 -5.384 0.300 4 F_DC4:DG4_G F 4 ? G 4 ? 19 1 1 A DC 5 1_555 B DG 3 1_555 0.133 0.061 0.474 -4.600 -2.917 0.486 5 F_DC5:DG3_G F 5 ? G 3 ? 19 1 1 A DG 6 1_555 B DC 2 1_555 -0.478 -0.237 0.119 -1.810 -13.275 2.136 6 F_DG6:DC2_G F 6 ? G 2 ? 19 1 1 A DT 7 1_555 B DA 1 1_555 -0.133 -0.174 -0.120 -4.484 -11.858 0.223 7 F_DT7:DA1_G F 7 ? G 1 ? 20 1 1 C DA 1 1_555 D DT 7 1_555 0.052 -0.148 -0.169 -3.400 -9.855 2.895 8 H_DA1:DT7_I H 1 ? I 7 ? 20 1 1 C DC 2 1_555 D DG 6 1_555 0.293 -0.115 0.054 -3.929 -7.944 2.126 9 H_DC2:DG6_I H 2 ? I 6 ? 19 1 1 C DG 3 1_555 D DC 5 1_555 -0.123 -0.131 0.339 -2.586 -4.362 2.762 10 H_DG3:DC5_I H 3 ? I 5 ? 19 1 1 C DC 4 1_555 D DG 4 1_555 0.003 -0.254 0.314 -10.102 -2.330 1.193 11 H_DC4:DG4_I H 4 ? I 4 ? 19 1 1 C DC 5 1_555 D DG 3 1_555 0.098 -0.078 0.174 -2.929 -2.286 0.816 12 H_DC5:DG3_I H 5 ? I 3 ? 19 1 1 C DG 6 1_555 D DC 2 1_555 -0.382 -0.202 0.564 1.355 -15.351 3.532 13 H_DG6:DC2_I H 6 ? I 2 ? 19 1 1 C DT 7 1_555 D DA 1 1_555 -0.033 -0.072 0.206 -2.548 -14.849 0.243 14 H_DT7:DA1_I H 7 ? I 1 ? 20 1 1 E DA 1 1_555 F DT 7 1_555 -0.011 -0.180 -0.082 0.868 -14.848 2.096 15 A_DA1:DT7_D A 1 ? D 7 ? 20 1 1 E DC 2 1_555 F DG 6 1_555 0.076 -0.209 0.457 -9.109 -19.505 2.312 16 A_DC2:DG6_D A 2 ? D 6 ? 19 1 1 E DG 3 1_555 F DC 5 1_555 -0.352 -0.119 0.104 -3.805 -4.607 1.596 17 A_DG3:DC5_D A 3 ? D 5 ? 19 1 1 E DC 4 1_555 F DG 4 1_555 0.169 -0.174 0.048 -3.073 -6.701 0.396 18 A_DC4:DG4_D A 4 ? D 4 ? 19 1 1 E DC 5 1_555 F DG 3 1_555 0.220 -0.133 0.274 -2.300 -2.813 -0.489 19 A_DC5:DG3_D A 5 ? D 3 ? 19 1 1 E DG 6 1_555 F DC 2 1_555 -0.088 -0.217 0.509 7.840 -15.011 -0.476 20 A_DG6:DC2_D A 6 ? D 2 ? 19 1 1 E DT 7 1_555 F DA 1 1_555 -0.130 -0.198 0.128 0.287 -16.956 -0.075 21 A_DT7:DA1_D A 7 ? D 1 ? 20 1 1 G DA 1 1_555 H DT 7 1_555 0.054 -0.108 -0.040 -1.027 -14.586 1.629 22 B_DA1:DT7_C B 1 ? C 7 ? 20 1 1 G DC 2 1_555 H DG 6 1_555 -0.215 -0.056 0.241 -9.449 -20.551 0.119 23 B_DC2:DG6_C B 2 ? C 6 ? 19 1 1 G DG 3 1_555 H DC 5 1_555 -0.178 -0.059 -0.184 -1.598 -4.385 -0.319 24 B_DG3:DC5_C B 3 ? C 5 ? 19 1 1 G DG 4 1_555 H DC 4 1_555 -0.137 -0.207 -0.339 -0.388 -3.959 0.726 25 B_DG4:DC4_C B 4 ? C 4 ? 19 1 1 G DC 5 1_555 H DG 3 1_555 0.301 -0.080 0.164 -0.235 -4.814 -0.721 26 B_DC5:DG3_C B 5 ? C 3 ? 19 1 1 G DG 6 1_555 H DC 2 1_555 -0.260 -0.322 0.443 2.359 -18.241 2.703 27 B_DG6:DC2_C B 6 ? C 2 ? 19 1 1 G DT 7 1_555 H DA 1 1_555 -0.055 -0.240 -0.043 -1.943 -12.949 1.601 28 B_DT7:DA1_C B 7 ? C 1 ? 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 DA 1 1_555 B DT 7 1_555 A DC 2 1_555 B DG 6 1_555 -0.009 -0.723 3.342 -0.627 -0.599 30.352 -1.258 -0.111 3.355 -1.144 1.197 30.364 1 FF_DA1DC2:DG6DT7_GG F 1 ? G 7 ? F 2 ? G 6 ? 1 A DC 2 1_555 B DG 6 1_555 A DG 3 1_555 B DC 5 1_555 -0.270 0.708 3.228 -1.485 8.422 29.960 -0.321 0.215 3.309 15.889 2.801 31.130 2 FF_DC2DG3:DC5DG6_GG F 2 ? G 6 ? F 3 ? G 5 ? 1 A DG 3 1_555 B DC 5 1_555 A DC 4 1_555 B DG 4 1_555 -0.222 -0.542 3.378 -2.708 -0.149 38.608 -0.799 -0.009 3.387 -0.225 4.090 38.699 3 FF_DG3DC4:DG4DC5_GG F 3 ? G 5 ? F 4 ? G 4 ? 1 A DC 4 1_555 B DG 4 1_555 A DC 5 1_555 B DG 3 1_555 0.791 0.016 3.367 3.010 3.506 35.889 -0.488 -0.833 3.407 5.661 -4.860 36.176 4 FF_DC4DC5:DG3DG4_GG F 4 ? G 4 ? F 5 ? G 3 ? 1 A DC 5 1_555 B DG 3 1_555 A DG 6 1_555 B DC 2 1_555 -0.242 0.395 3.227 -1.269 6.923 32.972 -0.446 0.211 3.247 12.028 2.204 33.694 5 FF_DC5DG6:DC2DG3_GG F 5 ? G 3 ? F 6 ? G 2 ? 1 A DG 6 1_555 B DC 2 1_555 A DT 7 1_555 B DA 1 1_555 -0.526 -0.618 3.299 1.320 1.352 33.069 -1.312 1.146 3.249 2.373 -2.316 33.121 6 FF_DG6DT7:DA1DC2_GG F 6 ? G 2 ? F 7 ? G 1 ? 1 A DT 7 1_555 B DA 1 1_555 C DA 1 1_555 D DT 7 1_555 0.000 1.070 3.522 -0.076 1.955 -22.848 -3.428 -0.029 3.419 -4.923 -0.192 -22.931 7 FH_DT7DA1:DT7DA1_IG F 7 ? G 1 ? H 1 ? I 7 ? 1 C DA 1 1_555 D DT 7 1_555 C DC 2 1_555 D DG 6 1_555 -0.164 -0.570 3.364 -2.547 -0.615 30.252 -0.962 -0.216 3.377 -1.176 4.870 30.363 8 HH_DA1DC2:DG6DT7_II H 1 ? I 7 ? H 2 ? I 6 ? 1 C DC 2 1_555 D DG 6 1_555 C DG 3 1_555 D DC 5 1_555 -0.390 0.731 3.321 -4.759 5.590 35.922 0.365 -0.059 3.415 8.949 7.618 36.641 9 HH_DC2DG3:DC5DG6_II H 2 ? I 6 ? H 3 ? I 5 ? 1 C DG 3 1_555 D DC 5 1_555 C DC 4 1_555 D DG 4 1_555 -0.185 -0.817 3.573 0.851 -1.372 33.762 -1.162 0.469 3.597 -2.360 -1.464 33.800 10 HH_DG3DC4:DG4DC5_II H 3 ? I 5 ? H 4 ? I 4 ? 1 C DC 4 1_555 D DG 4 1_555 C DC 5 1_555 D DG 3 1_555 0.903 0.175 3.027 4.190 4.740 34.982 -0.368 -0.901 3.107 7.807 -6.900 35.532 11 HH_DC4DC5:DG3DG4_II H 4 ? I 4 ? H 5 ? I 3 ? 1 C DC 5 1_555 D DG 3 1_555 C DG 6 1_555 D DC 2 1_555 -0.018 0.578 3.355 -3.644 4.857 33.955 0.193 -0.558 3.387 8.234 6.178 34.478 12 HH_DC5DG6:DC2DG3_II H 5 ? I 3 ? H 6 ? I 2 ? 1 C DG 6 1_555 D DC 2 1_555 C DT 7 1_555 D DA 1 1_555 -0.498 -0.726 3.273 1.741 1.789 32.727 -1.590 1.178 3.200 3.169 -3.084 32.819 13 HH_DG6DT7:DA1DC2_II H 6 ? I 2 ? H 7 ? I 1 ? 1 E DA 1 1_555 F DT 7 1_555 E DC 2 1_555 F DG 6 1_555 -0.218 -0.438 3.431 -3.855 -3.025 36.596 -0.259 -0.207 3.460 -4.791 6.106 36.911 14 AA_DA1DC2:DG6DT7_DD A 1 ? D 7 ? A 2 ? D 6 ? 1 E DC 2 1_555 F DG 6 1_555 E DG 3 1_555 F DC 5 1_555 0.301 0.828 3.330 3.239 6.125 33.692 0.401 0.020 3.436 10.431 -5.515 34.377 15 AA_DC2DG3:DC5DG6_DD A 2 ? D 6 ? A 3 ? D 5 ? 1 E DG 3 1_555 F DC 5 1_555 E DC 4 1_555 F DG 4 1_555 -0.471 -0.161 3.352 -0.649 4.655 33.153 -1.064 0.709 3.308 8.106 1.130 33.475 16 AA_DG3DC4:DG4DC5_DD A 3 ? D 5 ? A 4 ? D 4 ? 1 E DC 4 1_555 F DG 4 1_555 E DC 5 1_555 F DG 3 1_555 0.327 -0.103 3.259 -0.332 5.273 34.879 -0.947 -0.588 3.207 8.735 0.550 35.265 17 AA_DC4DC5:DG3DG4_DD A 4 ? D 4 ? A 5 ? D 3 ? 1 E DC 5 1_555 F DG 3 1_555 E DG 6 1_555 F DC 2 1_555 -0.035 0.799 3.086 -0.773 6.854 35.776 0.359 -0.047 3.180 11.030 1.244 36.413 18 AA_DC5DG6:DC2DG3_DD A 5 ? D 3 ? A 6 ? D 2 ? 1 E DG 6 1_555 F DC 2 1_555 E DT 7 1_555 F DA 1 1_555 0.490 -0.651 3.367 5.243 -2.393 35.050 -0.701 -0.001 3.438 -3.941 -8.633 35.506 19 AA_DG6DT7:DA1DC2_DD A 6 ? D 2 ? A 7 ? D 1 ? 1 E DT 7 1_555 F DA 1 1_555 G DA 1 1_555 H DT 7 1_555 -0.082 1.149 3.734 0.237 -10.009 -29.581 0.150 -0.098 3.906 18.932 0.448 -31.194 20 AB_DT7DA1:DT7DA1_CD A 7 ? D 1 ? B 1 ? C 7 ? 1 G DA 1 1_555 H DT 7 1_555 G DC 2 1_555 H DG 6 1_555 -0.356 -0.604 3.396 -3.583 -3.153 32.535 -0.500 -0.016 3.456 -5.591 6.353 32.874 21 BB_DA1DC2:DG6DT7_CC B 1 ? C 7 ? B 2 ? C 6 ? 1 G DC 2 1_555 H DG 6 1_555 G DG 3 1_555 H DC 5 1_555 -0.020 0.902 3.196 2.014 12.835 32.772 -0.480 0.342 3.302 21.714 -3.407 35.187 22 BB_DC2DG3:DC5DG6_CC B 2 ? C 6 ? B 3 ? C 5 ? 1 G DG 3 1_555 H DC 5 1_555 G DG 4 1_555 H DC 4 1_555 -0.648 0.182 3.349 -2.003 4.330 35.986 -0.334 0.751 3.377 6.970 3.224 36.291 23 BB_DG3DG4:DC4DC5_CC B 3 ? C 5 ? B 4 ? C 4 ? 1 G DG 4 1_555 H DC 4 1_555 G DC 5 1_555 H DG 3 1_555 0.443 -0.249 3.264 -3.049 4.654 32.845 -1.200 -1.275 3.148 8.158 5.345 33.300 24 BB_DG4DC5:DG3DC4_CC B 4 ? C 4 ? B 5 ? C 3 ? 1 G DC 5 1_555 H DG 3 1_555 G DG 6 1_555 H DC 2 1_555 -0.344 0.730 3.319 -3.741 6.861 34.536 0.148 -0.009 3.414 11.376 6.203 35.383 25 BB_DC5DG6:DC2DG3_CC B 5 ? C 3 ? B 6 ? C 2 ? 1 G DG 6 1_555 H DC 2 1_555 G DT 7 1_555 H DA 1 1_555 0.011 -0.603 3.374 4.355 -3.371 35.820 -0.477 0.619 3.393 -5.441 -7.029 36.227 26 BB_DG6DT7:DA1DC2_CC B 6 ? C 2 ? B 7 ? C 1 ? # _pdbx_audit_support.funding_organization 'Ministry of Science and Technology (MoST, Taiwan)' _pdbx_audit_support.country Taiwan _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 6JV5 _pdbx_initial_refinement_model.details ? # _atom_sites.entry_id 8XP9 _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] 0.021453 _atom_sites.fract_transf_matrix[1][2] 0.000000 _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] 0.021418 _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] 0.013315 _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 # loop_