data_9VMZ # _entry.id 9VMZ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.414 _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 9VMZ pdb_00009vmz 10.2210/pdb9vmz/pdb WWPDB D_1300060960 ? ? # _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 2026-07-01 _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 9VMZ _pdbx_database_status.recvd_initial_deposition_date 2025-06-29 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBC _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 N # _pdbx_contact_author.id 3 _pdbx_contact_author.email huanglin36@mail.sysu.edu.cn _pdbx_contact_author.name_first Lin _pdbx_contact_author.name_last Huang _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-2121-365X # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Peng, X.' 1 ? 'Huang, L.' 2 ? # _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 'Crystal structure of Broccoli aptamer in with BI' _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 'Peng, X.' 1 ? primary 'Huang, L.' 2 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'RNA (49-MER)' 15874.386 1 ? ? ? 'Fluorescent light-up aptamer' 2 non-polymer syn "GUANOSINE-5'-TRIPHOSPHATE" 523.180 1 ? ? ? ? 3 non-polymer syn '(5Z)-3-(3H-benzimidazol-4-ylmethyl)-5-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]methylidene]-2-methyl-imidazol-4-one' 368.337 1 ? ? ? ? 4 non-polymer syn 'POTASSIUM ION' 39.098 6 ? ? ? ? 5 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 6 water nat water 18.015 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code GGGACGGUCGGGUCCAGAUAUUCGUAUCUGUCGAGUAGAGUGUGGGCUC _entity_poly.pdbx_seq_one_letter_code_can GGGACGGUCGGGUCCAGAUAUUCGUAUCUGUCGAGUAGAGUGUGGGCUC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "GUANOSINE-5'-TRIPHOSPHATE" GTP 3 '(5Z)-3-(3H-benzimidazol-4-ylmethyl)-5-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]methylidene]-2-methyl-imidazol-4-one' A1EST 4 'POTASSIUM ION' K 5 'SODIUM ION' NA 6 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 G n 1 4 A n 1 5 C n 1 6 G n 1 7 G n 1 8 U n 1 9 C n 1 10 G n 1 11 G n 1 12 G n 1 13 U n 1 14 C n 1 15 C n 1 16 A n 1 17 G n 1 18 A n 1 19 U n 1 20 A n 1 21 U n 1 22 U n 1 23 C n 1 24 G n 1 25 U n 1 26 A n 1 27 U n 1 28 C n 1 29 U n 1 30 G n 1 31 U n 1 32 C n 1 33 G n 1 34 A n 1 35 G n 1 36 U n 1 37 A n 1 38 G n 1 39 A n 1 40 G n 1 41 U n 1 42 G n 1 43 U n 1 44 G n 1 45 G n 1 46 G n 1 47 C n 1 48 U n 1 49 C 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 49 _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 A1EST non-polymer . '(5Z)-3-(3H-benzimidazol-4-ylmethyl)-5-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]methylidene]-2-methyl-imidazol-4-one' ? 'C19 H14 F2 N4 O2' 368.337 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GTP non-polymer n "GUANOSINE-5'-TRIPHOSPHATE" ? 'C10 H16 N5 O14 P3' 523.180 HOH non-polymer . WATER ? 'H2 O' 18.015 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 ? ? ? A . n A 1 2 G 2 2 2 G G A . n A 1 3 G 3 3 3 G G A . n A 1 4 A 4 4 4 A A A . n A 1 5 C 5 5 5 C C A . n A 1 6 G 6 6 6 G G A . n A 1 7 G 7 7 7 G G A . n A 1 8 U 8 8 8 U U A . n A 1 9 C 9 9 9 C C A . n A 1 10 G 10 10 10 G G A . n A 1 11 G 11 11 11 G G A . n A 1 12 G 12 12 12 G G A . n A 1 13 U 13 13 13 U U A . n A 1 14 C 14 14 14 C C A . n A 1 15 C 15 15 15 C C A . n A 1 16 A 16 16 16 A A A . n A 1 17 G 17 17 17 G G A . n A 1 18 A 18 18 18 A A A . n A 1 19 U 19 19 19 U U A . n A 1 20 A 20 20 20 A A A . n A 1 21 U 21 21 21 U U A . n A 1 22 U 22 22 22 U U A . n A 1 23 C 23 23 23 C C A . n A 1 24 G 24 24 24 G G A . n A 1 25 U 25 25 25 U U A . n A 1 26 A 26 26 26 A A A . n A 1 27 U 27 27 27 U U A . n A 1 28 C 28 28 28 C C A . n A 1 29 U 29 29 29 U U A . n A 1 30 G 30 30 30 G G A . n A 1 31 U 31 31 31 U U A . n A 1 32 C 32 32 32 C C A . n A 1 33 G 33 33 33 G G A . n A 1 34 A 34 34 34 A A A . n A 1 35 G 35 35 35 G G A . n A 1 36 U 36 36 36 U U A . n A 1 37 A 37 37 37 A A A . n A 1 38 G 38 38 38 G G A . n A 1 39 A 39 39 39 A A A . n A 1 40 G 40 40 40 G G A . n A 1 41 U 41 41 41 U U A . n A 1 42 G 42 42 42 G G A . n A 1 43 U 43 43 43 U U A . n A 1 44 G 44 44 44 G G A . n A 1 45 G 45 45 45 G G A . n A 1 46 G 46 46 46 G G A . n A 1 47 C 47 47 47 C C A . n A 1 48 U 48 48 48 U U A . n A 1 49 C 49 49 49 C C A . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id A1EST _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id A1EST _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 B 2 GTP 1 101 1 GTP GTP A . C 3 A1EST 1 102 101 A1EST DRG A . D 4 K 1 103 1 K K A . E 4 K 1 104 2 K K A . F 4 K 1 105 3 K K A . G 4 K 1 106 4 K K A . H 4 K 1 107 5 K K A . I 4 K 1 108 6 K K A . J 5 NA 1 109 1 NA NA A . K 6 HOH 1 201 1 HOH HOH A . # 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_reference_DOI _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1_4487 ? 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1_4487 ? 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . ? 3 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . ? 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . ? 5 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 9VMZ _cell.details ? _cell.formula_units_Z ? _cell.length_a 34.598 _cell.length_a_esd ? _cell.length_b 51.018 _cell.length_b_esd ? _cell.length_c 92.223 _cell.length_c_esd ? _cell.volume 162781.574 _cell.volume_esd ? _cell.Z_PDB 4 _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 9VMZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab (y,z,x)' _symmetry.space_group_name_H-M 'P 21 2 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 9VMZ _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 2.67 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 54 _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 ? _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 ;0.04 M Lithium chloride, 0.08 M Strontium chloride hexahydrate, 0.02 M Magnesium chloride hexahydrate, 0.04 M Sodium cacodylate trihydrate pH 7.0, 30% v/v (+/-)-2-Methyl-2,4-pentanediol, 0.012 M Spermine tetrahydrochloride ; _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 291 # _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 PILATUS3 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2022-03-11 _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 0.97853 _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 'SSRF BEAMLINE BL19U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97853 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL19U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate 51.301 _reflns.entry_id 9VMZ _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.44 _reflns.d_resolution_low 32.39 _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 6439 _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 99.8 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 12.0 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 10.4 _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 0.034 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.999 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.113 _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 2.44 _reflns_shell.d_res_low 2.48 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.3 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 623 _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 0.277 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.455 _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 0.910 _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] ? _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 65.85 _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 9VMZ _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 2.44 _refine.ls_d_res_low 28.63 _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 6392 _refine.ls_number_reflns_R_free 313 _refine.ls_number_reflns_R_work 6079 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.51 _refine.ls_percent_reflns_R_free 4.90 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2410 _refine.ls_R_factor_R_free 0.2816 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2389 _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.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _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 1.48 _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 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _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 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 33.3429 _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 0.3673 _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 2.44 _refine_hist.d_res_low 28.63 _refine_hist.number_atoms_solvent 1 _refine_hist.number_atoms_total 1097 _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 1030 _refine_hist.pdbx_number_atoms_ligand 66 _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_Zscore _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0085 ? 1216 ? f_bond_d ? ? ? 'X-RAY DIFFRACTION' ? 1.1031 ? 1896 ? f_angle_d ? ? ? 'X-RAY DIFFRACTION' ? 0.0474 ? 246 ? f_chiral_restr ? ? ? 'X-RAY DIFFRACTION' ? 0.0134 ? 53 ? f_plane_restr ? ? ? 'X-RAY DIFFRACTION' ? 15.5226 ? 603 ? f_dihedral_angle_d ? ? ? # 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.correlation_coeff_Fo_to_Fc _refine_ls_shell.correlation_coeff_Fo_to_Fc_free _refine_ls_shell.correlation_coeff_I_to_Fcsqd_work _refine_ls_shell.correlation_coeff_I_to_Fcsqd_free _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' 2.44 3.07 . . 159 2972 98.68 . . . . 0.3025 . . . . . . . . . . . . . . . 0.3664 'X-RAY DIFFRACTION' 3.07 28.63 . . 154 3107 98.37 . . . . 0.2229 . . . . . . . . . . . . . . . 0.2621 # _struct.entry_id 9VMZ _struct.title 'Crystal structure of Broccoli aptamer in with BI' _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 9VMZ _struct_keywords.text 'Fluorescent light-up aptamer, Broccoli aptamer, BI, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 4 ? F N N 4 ? G N N 4 ? H N N 4 ? I N N 4 ? J N N 5 ? K N N 6 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9VMZ _struct_ref.pdbx_db_accession 9VMZ _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 9VMZ _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 49 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 9VMZ _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 49 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 49 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 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)' 2460 ? 1 MORE -23 ? 1 'SSA (A^2)' 17090 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # 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_556 -x,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 92.2230000000 # 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 G 2 P ? ? ? 1_555 B GTP . "O3'" ? ? A G 2 A GTP 101 1_555 ? ? ? ? ? ? ? 1.629 ? ? metalc1 metalc ? ? A C 5 O2 ? ? ? 1_555 J NA . NA ? ? A C 5 A NA 109 1_555 ? ? ? ? ? ? ? 3.136 ? ? metalc2 metalc ? ? A G 6 O6 ? ? ? 1_555 D K . K ? ? A G 6 A K 103 1_555 ? ? ? ? ? ? ? 2.803 ? ? metalc3 metalc ? ? A G 6 O6 ? ? ? 1_555 E K . K ? ? A G 6 A K 104 1_555 ? ? ? ? ? ? ? 2.924 ? ? metalc4 metalc ? ? A G 7 O6 ? ? ? 1_555 D K . K ? ? A G 7 A K 103 1_555 ? ? ? ? ? ? ? 2.947 ? ? metalc5 metalc ? ? A G 7 OP2 ? ? ? 1_555 F K . K ? ? A G 7 A K 105 1_555 ? ? ? ? ? ? ? 2.828 ? ? metalc6 metalc ? ? A G 10 O6 ? ? ? 1_555 D K . K ? ? A G 10 A K 103 1_555 ? ? ? ? ? ? ? 2.862 ? ? metalc7 metalc ? ? A G 11 O6 ? ? ? 1_555 D K . K ? ? A G 11 A K 103 1_555 ? ? ? ? ? ? ? 2.724 ? ? metalc8 metalc ? ? A U 21 O4 ? ? ? 1_555 H K . K ? ? A U 21 A K 107 1_555 ? ? ? ? ? ? ? 2.637 ? ? metalc9 metalc ? ? A G 24 OP1 ? ? ? 1_555 H K . K ? ? A G 24 A K 107 2_556 ? ? ? ? ? ? ? 3.399 ? ? metalc10 metalc ? ? A G 35 O6 ? ? ? 1_555 D K . K ? ? A G 35 A K 103 1_555 ? ? ? ? ? ? ? 3.383 ? ? metalc11 metalc ? ? A U 36 O4 ? ? ? 1_555 J NA . NA ? ? A U 36 A NA 109 1_555 ? ? ? ? ? ? ? 3.067 ? ? metalc12 metalc ? ? A G 38 O6 ? ? ? 1_555 D K . K ? ? A G 38 A K 103 1_555 ? ? ? ? ? ? ? 2.611 ? ? metalc13 metalc ? ? A G 38 O6 ? ? ? 1_555 E K . K ? ? A G 38 A K 104 1_555 ? ? ? ? ? ? ? 3.126 ? ? metalc14 metalc ? ? A G 40 O6 ? ? ? 1_555 D K . K ? ? A G 40 A K 103 1_555 ? ? ? ? ? ? ? 2.948 ? ? metalc15 metalc ? ? A G 42 O6 ? ? ? 1_555 D K . K ? ? A G 42 A K 103 1_555 ? ? ? ? ? ? ? 2.993 ? ? metalc16 metalc ? ? A G 42 O6 ? ? ? 1_555 E K . K ? ? A G 42 A K 104 1_555 ? ? ? ? ? ? ? 3.043 ? ? metalc17 metalc ? ? A U 43 "O2'" ? ? ? 1_555 E K . K ? ? A U 43 A K 104 1_555 ? ? ? ? ? ? ? 2.583 ? ? metalc18 metalc ? ? A U 43 O2 ? ? ? 1_555 E K . K ? ? A U 43 A K 104 1_555 ? ? ? ? ? ? ? 2.576 ? ? metalc19 metalc ? ? A G 44 O6 ? ? ? 1_555 E K . K ? ? A G 44 A K 104 1_555 ? ? ? ? ? ? ? 3.006 ? ? hydrog1 hydrog ? ? A G 2 N1 ? ? ? 1_555 A U 48 O2 ? ? A G 2 A U 48 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog2 hydrog ? ? A G 2 O6 ? ? ? 1_555 A U 48 N3 ? ? A G 2 A U 48 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog3 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 47 N3 ? ? A G 3 A C 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 47 O2 ? ? A G 3 A C 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 47 N4 ? ? A G 3 A C 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 4 N1 ? ? ? 1_555 A G 46 N1 ? ? A A 4 A G 46 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog7 hydrog ? ? A A 4 N6 ? ? ? 1_555 A G 46 O6 ? ? A A 4 A G 46 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog8 hydrog ? ? A C 5 N4 ? ? ? 1_555 A G 45 O6 ? ? A C 5 A G 45 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog9 hydrog ? ? A G 6 N1 ? ? ? 1_555 A G 10 O6 ? ? A G 6 A G 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A G 6 N2 ? ? ? 1_555 A G 10 N7 ? ? A G 6 A G 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A G 6 N7 ? ? ? 1_555 A G 38 N2 ? ? A G 6 A G 38 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A G 6 O6 ? ? ? 1_555 A G 38 N1 ? ? A G 6 A G 38 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A G 7 N1 ? ? ? 1_555 A G 11 O6 ? ? A G 7 A G 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A G 7 N2 ? ? ? 1_555 A G 11 N7 ? ? A G 7 A G 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A G 7 N7 ? ? ? 1_555 A G 35 N2 ? ? A G 7 A G 35 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A G 7 O6 ? ? ? 1_555 A G 35 N1 ? ? A G 7 A G 35 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A C 9 N4 ? ? ? 1_555 A U 36 O4 ? ? A C 9 A U 36 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ? ? ? hydrog18 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 44 N1 ? ? A C 9 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 44 O6 ? ? A C 9 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 44 N2 ? ? A C 9 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 10 N1 ? ? ? 1_555 A G 42 O6 ? ? A G 10 A G 42 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A G 10 N2 ? ? ? 1_555 A G 42 N7 ? ? A G 10 A G 42 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A G 11 N1 ? ? ? 1_555 A G 40 O6 ? ? A G 11 A G 40 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A G 11 N2 ? ? ? 1_555 A G 40 N7 ? ? A G 11 A G 40 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A U 13 N3 ? ? ? 1_555 A A 34 N1 ? ? A U 13 A A 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A U 13 O4 ? ? ? 1_555 A A 34 N6 ? ? A U 13 A A 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 14 N3 ? ? ? 1_555 A G 33 N1 ? ? A C 14 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 14 N4 ? ? ? 1_555 A G 33 O6 ? ? A C 14 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 14 O2 ? ? ? 1_555 A G 33 N2 ? ? A C 14 A G 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 15 N3 ? ? ? 1_555 A G 30 N1 ? ? A C 15 A G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 15 N4 ? ? ? 1_555 A G 30 O6 ? ? A C 15 A G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 15 O2 ? ? ? 1_555 A G 30 N2 ? ? A C 15 A G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A A 16 N1 ? ? ? 1_555 A U 29 N3 ? ? A A 16 A U 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A A 16 N6 ? ? ? 1_555 A U 29 O4 ? ? A A 16 A U 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 17 N1 ? ? ? 1_555 A C 28 N3 ? ? A G 17 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 17 N2 ? ? ? 1_555 A C 28 O2 ? ? A G 17 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A G 17 O6 ? ? ? 1_555 A C 28 N4 ? ? A G 17 A C 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A A 18 N1 ? ? ? 1_555 A U 27 N3 ? ? A A 18 A U 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A A 18 N6 ? ? ? 1_555 A U 27 O4 ? ? A A 18 A U 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A U 19 N3 ? ? ? 1_555 A A 26 N1 ? ? A U 19 A A 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A U 19 O4 ? ? ? 1_555 A A 26 N6 ? ? A U 19 A A 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A A 20 N1 ? ? ? 1_555 A U 25 N3 ? ? A A 20 A U 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A A 20 N6 ? ? ? 1_555 A U 25 O4 ? ? A A 20 A U 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A U 21 O2 ? ? ? 1_555 A G 24 N1 ? ? A U 21 A G 24 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog45 hydrog ? ? A U 31 N3 ? ? ? 1_555 A A 34 N7 ? ? A U 31 A A 34 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog46 hydrog ? ? A U 31 O4 ? ? ? 1_555 A A 34 N6 ? ? A U 31 A A 34 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog47 hydrog ? ? A G 35 N7 ? ? ? 1_555 A G 40 N2 ? ? A G 35 A G 40 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog48 hydrog ? ? A G 35 O6 ? ? ? 1_555 A G 40 N1 ? ? A G 35 A G 40 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog49 hydrog ? ? A U 36 O2 ? ? ? 1_555 A U 43 N3 ? ? A U 36 A U 43 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog50 hydrog ? ? A G 38 N7 ? ? ? 1_555 A G 42 N2 ? ? A G 38 A G 42 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog51 hydrog ? ? A G 38 O6 ? ? ? 1_555 A G 42 N1 ? ? A G 38 A G 42 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O2 ? A C 5 ? A C 5 ? 1_555 NA ? J NA . ? A NA 109 ? 1_555 O4 ? A U 36 ? A U 36 ? 1_555 85.8 ? 2 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 7 ? A G 7 ? 1_555 77.3 ? 3 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 10 ? A G 10 ? 1_555 75.4 ? 4 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 10 ? A G 10 ? 1_555 90.3 ? 5 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 11 ? A G 11 ? 1_555 146.3 ? 6 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 11 ? A G 11 ? 1_555 84.7 ? 7 O6 ? A G 10 ? A G 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 11 ? A G 11 ? 1_555 76.4 ? 8 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 35 ? A G 35 ? 1_555 94.3 ? 9 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 35 ? A G 35 ? 1_555 69.7 ? 10 O6 ? A G 10 ? A G 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 35 ? A G 35 ? 1_555 159.2 ? 11 O6 ? A G 11 ? A G 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 35 ? A G 35 ? 1_555 106.0 ? 12 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 77.2 ? 13 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 124.9 ? 14 O6 ? A G 10 ? A G 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 128.3 ? 15 O6 ? A G 11 ? A G 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 135.8 ? 16 O6 ? A G 35 ? A G 35 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 64.5 ? 17 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 152.7 ? 18 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 114.7 ? 19 O6 ? A G 10 ? A G 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 126.4 ? 20 O6 ? A G 11 ? A G 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 61.0 ? 21 O6 ? A G 35 ? A G 35 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 69.6 ? 22 O6 ? A G 38 ? A G 38 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 40 ? A G 40 ? 1_555 75.9 ? 23 O6 ? A G 6 ? A G 6 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 109.1 ? 24 O6 ? A G 7 ? A G 7 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 158.0 ? 25 O6 ? A G 10 ? A G 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 71.8 ? 26 O6 ? A G 11 ? A G 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 78.8 ? 27 O6 ? A G 35 ? A G 35 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 129.0 ? 28 O6 ? A G 38 ? A G 38 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 77.0 ? 29 O6 ? A G 40 ? A G 40 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 69.4 ? 30 O6 ? A G 6 ? A G 6 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 38 ? A G 38 ? 1_555 67.9 ? 31 O6 ? A G 6 ? A G 6 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 104.6 ? 32 O6 ? A G 38 ? A G 38 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 42 ? A G 42 ? 1_555 69.2 ? 33 O6 ? A G 6 ? A G 6 ? 1_555 K ? E K . ? A K 104 ? 1_555 "O2'" ? A U 43 ? A U 43 ? 1_555 150.6 ? 34 O6 ? A G 38 ? A G 38 ? 1_555 K ? E K . ? A K 104 ? 1_555 "O2'" ? A U 43 ? A U 43 ? 1_555 88.5 ? 35 O6 ? A G 42 ? A G 42 ? 1_555 K ? E K . ? A K 104 ? 1_555 "O2'" ? A U 43 ? A U 43 ? 1_555 81.5 ? 36 O6 ? A G 6 ? A G 6 ? 1_555 K ? E K . ? A K 104 ? 1_555 O2 ? A U 43 ? A U 43 ? 1_555 77.1 ? 37 O6 ? A G 38 ? A G 38 ? 1_555 K ? E K . ? A K 104 ? 1_555 O2 ? A U 43 ? A U 43 ? 1_555 71.2 ? 38 O6 ? A G 42 ? A G 42 ? 1_555 K ? E K . ? A K 104 ? 1_555 O2 ? A U 43 ? A U 43 ? 1_555 135.8 ? 39 "O2'" ? A U 43 ? A U 43 ? 1_555 K ? E K . ? A K 104 ? 1_555 O2 ? A U 43 ? A U 43 ? 1_555 78.8 ? 40 O6 ? A G 6 ? A G 6 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 44 ? A G 44 ? 1_555 96.8 ? 41 O6 ? A G 38 ? A G 38 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 44 ? A G 44 ? 1_555 155.3 ? 42 O6 ? A G 42 ? A G 42 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 44 ? A G 44 ? 1_555 98.0 ? 43 "O2'" ? A U 43 ? A U 43 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 44 ? A G 44 ? 1_555 111.0 ? 44 O2 ? A U 43 ? A U 43 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A G 44 ? A G 44 ? 1_555 125.9 ? 45 O4 ? A U 21 ? A U 21 ? 1_555 K ? H K . ? A K 107 ? 1_555 OP1 ? A G 24 ? A G 24 ? 1_555 60.9 ? # _pdbx_entry_details.entry_id 9VMZ _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_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 C6 A G 35 ? ? N1 A G 35 ? ? C2 A G 35 ? ? 121.40 125.10 -3.70 0.60 N 2 1 C5 A U 43 ? ? C4 A U 43 ? ? O4 A U 43 ? ? 129.69 125.90 3.79 0.60 N # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 x+1/2,-y,-z+1/2 3 -x,y,-z 4 -x+1/2,-y,z+1/2 # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[1][1]_esd _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][2]_esd _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[1][3]_esd _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[2][2]_esd _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.T[2][3]_esd _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[3][3]_esd _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[1][1]_esd _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][2]_esd _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[1][3]_esd _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[2][2]_esd _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.L[2][3]_esd _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[3][3]_esd _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][1]_esd _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][2]_esd _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[1][3]_esd _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][1]_esd _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][2]_esd _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][3]_esd _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][1]_esd _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][2]_esd _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[3][3]_esd 1 'X-RAY DIFFRACTION' ? refined 9.66487653999 7.43314775185 13.0639773907 0.701996346837 ? -0.0586766066372 ? -0.0124277028423 ? 0.508650129039 ? 0.0743084214398 ? 0.285148022215 ? 4.33006957331 ? -0.202909504859 ? 1.86755133336 ? 4.40455901833 ? -0.978113033252 ? 7.93108815877 ? 0.0689440950226 ? 0.0746214759134 ? -0.390946355179 ? -0.60017646664 ? 0.330197444448 ? 0.00318563878202 ? 0.360442056043 ? 0.0898330068551 ? -0.308303959049 ? 2 'X-RAY DIFFRACTION' ? refined 6.74735858233 20.8312160148 31.9781182371 0.662639399261 ? 0.0648168057632 ? 0.0268230153751 ? 0.592176739321 ? -0.00814023694831 ? 0.427930860639 ? 0.499677846374 ? -1.66458798745 ? -1.75579699623 ? 5.63968687084 ? 4.4352942367 ? 5.73173783605 ? -0.107726007362 ? -0.203025836449 ? 0.305210637536 ? 0.123250080319 ? 0.433468621442 ? -0.562009902771 ? -0.062390549192 ? 0.30434458076 ? -0.204716562361 ? 3 'X-RAY DIFFRACTION' ? refined 3.13487525537 5.61006631252 12.7198140462 0.646313855702 ? -0.00580262932931 ? -0.13782563597 ? 0.55020070546 ? 0.0944124973418 ? 0.38118112353 ? 5.52537362375 ? 0.5044803215 ? -0.783089785654 ? 6.58477960096 ? -1.23999920411 ? 2.05245709879 ? 0.383720666548 ? 0.118160836951 ? -0.322870815233 ? 0.295416788546 ? 0.156825652389 ? 0.383127612257 ? -0.0250171718695 ? -0.964955108908 ? -0.64101145957 ? # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_PDB_ins_code _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_PDB_ins_code _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 B ? A 2 ? B ? A 11 ? ? ;chain 'A' and (resid 2 through 11 ) ; 2 'X-RAY DIFFRACTION' 2 B ? A 12 ? B ? A 36 ? ? ;chain 'A' and (resid 12 through 36 ) ; 3 'X-RAY DIFFRACTION' 3 B ? A 37 ? B ? A 49 ? ? ;chain 'A' and (resid 37 through 49 ) ; # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id G _pdbx_unobs_or_zero_occ_residues.auth_seq_id 1 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id A _pdbx_unobs_or_zero_occ_residues.label_comp_id G _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # 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 A1EST CAA C Y N 38 A1EST CAB C Y N 39 A1EST CAC C Y N 40 A1EST CAD C Y N 41 A1EST CAE C Y N 42 A1EST CAF C Y N 43 A1EST CAJ C N N 44 A1EST CAK C N N 45 A1EST CAM C N N 46 A1EST CAO C N N 47 A1EST CAQ C N N 48 A1EST CAR C Y N 49 A1EST CAS C Y N 50 A1EST CAT C Y N 51 A1EST CAU C Y N 52 A1EST CAV C Y N 53 A1EST CAW C Y N 54 A1EST CAY C Y N 55 A1EST CBA C N N 56 A1EST FAG F N N 57 A1EST FAH F N N 58 A1EST NAL N N N 59 A1EST NAN N N N 60 A1EST NAX N Y N 61 A1EST NAZ N Y N 62 A1EST OAI O N N 63 A1EST OAP O N N 64 A1EST HAA1 H N N 65 A1EST HAC1 H N N 66 A1EST HAJ2 H N N 67 A1EST HAQ1 H N N 68 A1EST HAQ2 H N N 69 A1EST HAU1 H N N 70 A1EST HAV1 H N N 71 A1EST HAW1 H N N 72 A1EST HAY1 H N N 73 A1EST HBA2 H N N 74 A1EST HBA3 H N N 75 A1EST HBA1 H N N 76 A1EST H1 H N N 77 A1EST HAI1 H N N 78 C OP3 O N N 79 C P P N N 80 C OP1 O N N 81 C OP2 O N N 82 C "O5'" O N N 83 C "C5'" C N N 84 C "C4'" C N R 85 C "O4'" O N N 86 C "C3'" C N S 87 C "O3'" O N N 88 C "C2'" C N R 89 C "O2'" O N N 90 C "C1'" C N R 91 C N1 N N N 92 C C2 C N N 93 C O2 O N N 94 C N3 N N N 95 C C4 C N N 96 C N4 N N N 97 C C5 C N N 98 C C6 C N N 99 C HOP3 H N N 100 C HOP2 H N N 101 C "H5'" H N N 102 C "H5''" H N N 103 C "H4'" H N N 104 C "H3'" H N N 105 C "HO3'" H N N 106 C "H2'" H N N 107 C "HO2'" H N N 108 C "H1'" H N N 109 C H41 H N N 110 C H42 H N N 111 C H5 H N N 112 C H6 H N N 113 G OP3 O N N 114 G P P N N 115 G OP1 O N N 116 G OP2 O N N 117 G "O5'" O N N 118 G "C5'" C N N 119 G "C4'" C N R 120 G "O4'" O N N 121 G "C3'" C N S 122 G "O3'" O N N 123 G "C2'" C N R 124 G "O2'" O N N 125 G "C1'" C N R 126 G N9 N Y N 127 G C8 C Y N 128 G N7 N Y N 129 G C5 C Y N 130 G C6 C N N 131 G O6 O N N 132 G N1 N N N 133 G C2 C N N 134 G N2 N N N 135 G N3 N N N 136 G C4 C Y N 137 G HOP3 H N N 138 G HOP2 H N N 139 G "H5'" H N N 140 G "H5''" H N N 141 G "H4'" H N N 142 G "H3'" H N N 143 G "HO3'" H N N 144 G "H2'" H N N 145 G "HO2'" H N N 146 G "H1'" H N N 147 G H8 H N N 148 G H1 H N N 149 G H21 H N N 150 G H22 H N N 151 GTP PG P N N 152 GTP O1G O N N 153 GTP O2G O N N 154 GTP O3G O N N 155 GTP O3B O N N 156 GTP PB P N N 157 GTP O1B O N N 158 GTP O2B O N N 159 GTP O3A O N N 160 GTP PA P N N 161 GTP O1A O N N 162 GTP O2A O N N 163 GTP "O5'" O N N 164 GTP "C5'" C N N 165 GTP "C4'" C N R 166 GTP "O4'" O N N 167 GTP "C3'" C N S 168 GTP "O3'" O N N 169 GTP "C2'" C N R 170 GTP "O2'" O N N 171 GTP "C1'" C N R 172 GTP N9 N Y N 173 GTP C8 C Y N 174 GTP N7 N Y N 175 GTP C5 C Y N 176 GTP C6 C N N 177 GTP O6 O N N 178 GTP N1 N N N 179 GTP C2 C N N 180 GTP N2 N N N 181 GTP N3 N N N 182 GTP C4 C Y N 183 GTP HOG2 H N N 184 GTP HOG3 H N N 185 GTP HOB2 H N N 186 GTP HOA2 H N N 187 GTP "H5'" H N N 188 GTP "H5''" H N N 189 GTP "H4'" H N N 190 GTP "H3'" H N N 191 GTP "HO3'" H N N 192 GTP "H2'" H N N 193 GTP "HO2'" H N N 194 GTP "H1'" H N N 195 GTP H8 H N N 196 GTP HN1 H N N 197 GTP HN21 H N N 198 GTP HN22 H N N 199 HOH O O N N 200 HOH H1 H N N 201 HOH H2 H N N 202 K K K N N 203 NA NA NA N N 204 U OP3 O N N 205 U P P N N 206 U OP1 O N N 207 U OP2 O N N 208 U "O5'" O N N 209 U "C5'" C N N 210 U "C4'" C N R 211 U "O4'" O N N 212 U "C3'" C N S 213 U "O3'" O N N 214 U "C2'" C N R 215 U "O2'" O N N 216 U "C1'" C N R 217 U N1 N N N 218 U C2 C N N 219 U O2 O N N 220 U N3 N N N 221 U C4 C N N 222 U O4 O N N 223 U C5 C N N 224 U C6 C N N 225 U HOP3 H N N 226 U HOP2 H N N 227 U "H5'" H N N 228 U "H5''" H N N 229 U "H4'" H N N 230 U "H3'" H N N 231 U "HO3'" H N N 232 U "H2'" H N N 233 U "HO2'" H N N 234 U "H1'" H N N 235 U H3 H N N 236 U H5 H N N 237 U H6 H N N 238 # 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 A1EST CAA CAF doub Y N 40 A1EST CAA CAB sing Y N 41 A1EST CAF FAH sing N N 42 A1EST CAF CAE sing Y N 43 A1EST CAE OAI sing N N 44 A1EST CAE CAD doub Y N 45 A1EST CAD FAG sing N N 46 A1EST CAD CAC sing Y N 47 A1EST CAC CAB doub Y N 48 A1EST CAB CAJ sing N N 49 A1EST CAJ CAK doub N Z 50 A1EST CAK CAO sing N N 51 A1EST CAK NAL sing N N 52 A1EST CAO OAP doub N N 53 A1EST CAO NAN sing N N 54 A1EST NAL CAM doub N N 55 A1EST CAM CBA sing N N 56 A1EST CAM NAN sing N N 57 A1EST NAN CAQ sing N N 58 A1EST CAQ CAR sing N N 59 A1EST CAR CAS doub Y N 60 A1EST CAR CAW sing Y N 61 A1EST CAS NAX sing Y N 62 A1EST CAS CAT sing Y N 63 A1EST NAX CAY sing Y N 64 A1EST CAY NAZ doub Y N 65 A1EST NAZ CAT sing Y N 66 A1EST CAT CAU doub Y N 67 A1EST CAU CAV sing Y N 68 A1EST CAV CAW doub Y N 69 A1EST CAA HAA1 sing N N 70 A1EST CAC HAC1 sing N N 71 A1EST CAJ HAJ2 sing N N 72 A1EST CAQ HAQ1 sing N N 73 A1EST CAQ HAQ2 sing N N 74 A1EST CAU HAU1 sing N N 75 A1EST CAV HAV1 sing N N 76 A1EST CAW HAW1 sing N N 77 A1EST CAY HAY1 sing N N 78 A1EST CBA HBA2 sing N N 79 A1EST CBA HBA3 sing N N 80 A1EST CBA HBA1 sing N N 81 A1EST NAX H1 sing N N 82 A1EST OAI HAI1 sing N N 83 C OP3 P sing N N 84 C OP3 HOP3 sing N N 85 C P OP1 doub N N 86 C P OP2 sing N N 87 C P "O5'" sing N N 88 C OP2 HOP2 sing N N 89 C "O5'" "C5'" sing N N 90 C "C5'" "C4'" sing N N 91 C "C5'" "H5'" sing N N 92 C "C5'" "H5''" sing N N 93 C "C4'" "O4'" sing N N 94 C "C4'" "C3'" sing N N 95 C "C4'" "H4'" sing N N 96 C "O4'" "C1'" sing N N 97 C "C3'" "O3'" sing N N 98 C "C3'" "C2'" sing N N 99 C "C3'" "H3'" sing N N 100 C "O3'" "HO3'" sing N N 101 C "C2'" "O2'" sing N N 102 C "C2'" "C1'" sing N N 103 C "C2'" "H2'" sing N N 104 C "O2'" "HO2'" sing N N 105 C "C1'" N1 sing N N 106 C "C1'" "H1'" sing N N 107 C N1 C2 sing N N 108 C N1 C6 sing N N 109 C C2 O2 doub N N 110 C C2 N3 sing N N 111 C N3 C4 doub N N 112 C C4 N4 sing N N 113 C C4 C5 sing N N 114 C N4 H41 sing N N 115 C N4 H42 sing N N 116 C C5 C6 doub N N 117 C C5 H5 sing N N 118 C C6 H6 sing N N 119 G OP3 P sing N N 120 G OP3 HOP3 sing N N 121 G P OP1 doub N N 122 G P OP2 sing N N 123 G P "O5'" sing N N 124 G OP2 HOP2 sing N N 125 G "O5'" "C5'" sing N N 126 G "C5'" "C4'" sing N N 127 G "C5'" "H5'" sing N N 128 G "C5'" "H5''" sing N N 129 G "C4'" "O4'" sing N N 130 G "C4'" "C3'" sing N N 131 G "C4'" "H4'" sing N N 132 G "O4'" "C1'" sing N N 133 G "C3'" "O3'" sing N N 134 G "C3'" "C2'" sing N N 135 G "C3'" "H3'" sing N N 136 G "O3'" "HO3'" sing N N 137 G "C2'" "O2'" sing N N 138 G "C2'" "C1'" sing N N 139 G "C2'" "H2'" sing N N 140 G "O2'" "HO2'" sing N N 141 G "C1'" N9 sing N N 142 G "C1'" "H1'" sing N N 143 G N9 C8 sing Y N 144 G N9 C4 sing Y N 145 G C8 N7 doub Y N 146 G C8 H8 sing N N 147 G N7 C5 sing Y N 148 G C5 C6 sing N N 149 G C5 C4 doub Y N 150 G C6 O6 doub N N 151 G C6 N1 sing N N 152 G N1 C2 sing N N 153 G N1 H1 sing N N 154 G C2 N2 sing N N 155 G C2 N3 doub N N 156 G N2 H21 sing N N 157 G N2 H22 sing N N 158 G N3 C4 sing N N 159 GTP PG O1G doub N N 160 GTP PG O2G sing N N 161 GTP PG O3G sing N N 162 GTP PG O3B sing N N 163 GTP O2G HOG2 sing N N 164 GTP O3G HOG3 sing N N 165 GTP O3B PB sing N N 166 GTP PB O1B doub N N 167 GTP PB O2B sing N N 168 GTP PB O3A sing N N 169 GTP O2B HOB2 sing N N 170 GTP O3A PA sing N N 171 GTP PA O1A doub N N 172 GTP PA O2A sing N N 173 GTP PA "O5'" sing N N 174 GTP O2A HOA2 sing N N 175 GTP "O5'" "C5'" sing N N 176 GTP "C5'" "C4'" sing N N 177 GTP "C5'" "H5'" sing N N 178 GTP "C5'" "H5''" sing N N 179 GTP "C4'" "O4'" sing N N 180 GTP "C4'" "C3'" sing N N 181 GTP "C4'" "H4'" sing N N 182 GTP "O4'" "C1'" sing N N 183 GTP "C3'" "O3'" sing N N 184 GTP "C3'" "C2'" sing N N 185 GTP "C3'" "H3'" sing N N 186 GTP "O3'" "HO3'" sing N N 187 GTP "C2'" "O2'" sing N N 188 GTP "C2'" "C1'" sing N N 189 GTP "C2'" "H2'" sing N N 190 GTP "O2'" "HO2'" sing N N 191 GTP "C1'" N9 sing N N 192 GTP "C1'" "H1'" sing N N 193 GTP N9 C8 sing Y N 194 GTP N9 C4 sing Y N 195 GTP C8 N7 doub Y N 196 GTP C8 H8 sing N N 197 GTP N7 C5 sing Y N 198 GTP C5 C6 sing N N 199 GTP C5 C4 doub Y N 200 GTP C6 O6 doub N N 201 GTP C6 N1 sing N N 202 GTP N1 C2 sing N N 203 GTP N1 HN1 sing N N 204 GTP C2 N2 sing N N 205 GTP C2 N3 doub N N 206 GTP N2 HN21 sing N N 207 GTP N2 HN22 sing N N 208 GTP N3 C4 sing N N 209 HOH O H1 sing N N 210 HOH O H2 sing N N 211 U OP3 P sing N N 212 U OP3 HOP3 sing N N 213 U P OP1 doub N N 214 U P OP2 sing N N 215 U P "O5'" sing N N 216 U OP2 HOP2 sing N N 217 U "O5'" "C5'" sing N N 218 U "C5'" "C4'" sing N N 219 U "C5'" "H5'" sing N N 220 U "C5'" "H5''" sing N N 221 U "C4'" "O4'" sing N N 222 U "C4'" "C3'" sing N N 223 U "C4'" "H4'" sing N N 224 U "O4'" "C1'" sing N N 225 U "C3'" "O3'" sing N N 226 U "C3'" "C2'" sing N N 227 U "C3'" "H3'" sing N N 228 U "O3'" "HO3'" sing N N 229 U "C2'" "O2'" sing N N 230 U "C2'" "C1'" sing N N 231 U "C2'" "H2'" sing N N 232 U "O2'" "HO2'" sing N N 233 U "C1'" N1 sing N N 234 U "C1'" "H1'" sing N N 235 U N1 C2 sing N N 236 U N1 C6 sing N N 237 U C2 O2 doub N N 238 U C2 N3 sing N N 239 U N3 C4 sing N N 240 U N3 H3 sing N N 241 U C4 O4 doub N N 242 U C4 C5 sing N N 243 U C5 C6 doub N N 244 U C5 H5 sing N N 245 U C6 H6 sing N N 246 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 9VMZ 'double helix' 9VMZ 'a-form double helix' 9VMZ 'parallel strands' 9VMZ tetraloop 9VMZ 'bulge loop' 9VMZ 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 2 1_555 A U 48 1_555 -1.525 -0.359 0.174 -5.784 -16.522 0.105 1 A_G2:U48_A A 2 ? A 48 ? 28 1 1 A G 3 1_555 A C 47 1_555 -0.129 -0.007 -0.011 -15.080 -21.243 -4.489 2 A_G3:C47_A A 3 ? A 47 ? 19 1 1 A A 4 1_555 A G 46 1_555 0.102 1.450 -0.181 -19.615 -9.581 -16.281 3 A_A4:G46_A A 4 ? A 46 ? 8 1 1 A C 5 1_555 A G 45 1_555 0.367 1.383 -0.539 -11.041 -8.576 -45.815 4 A_C5:G45_A A 5 ? A 45 ? ? ? 1 A U 36 1_555 A U 43 1_555 -1.304 -4.329 0.767 -21.019 7.976 -131.279 5 A_U36:U43_A A 36 ? A 43 ? ? ? 1 A G 7 1_555 A G 35 1_555 -2.104 -2.935 -0.233 -0.076 4.241 89.471 6 A_G7:G35_A A 7 ? A 35 ? 6 3 1 A U 13 1_555 A A 34 1_555 0.477 0.080 -0.112 1.888 0.395 4.388 7 A_U13:A34_A A 13 ? A 34 ? 20 1 1 A C 14 1_555 A G 33 1_555 -0.122 -0.091 0.005 10.665 -9.579 4.911 8 A_C14:G33_A A 14 ? A 33 ? 19 1 1 A C 15 1_555 A G 30 1_555 -0.165 -0.289 0.314 9.580 -15.318 -2.588 9 A_C15:G30_A A 15 ? A 30 ? 19 1 1 A A 16 1_555 A U 29 1_555 -0.784 -0.160 0.182 5.219 -14.855 1.717 10 A_A16:U29_A A 16 ? A 29 ? 20 1 1 A G 17 1_555 A C 28 1_555 -0.305 -0.483 0.124 2.471 -17.103 -2.936 11 A_G17:C28_A A 17 ? A 28 ? 19 1 1 A A 18 1_555 A U 27 1_555 -0.450 -0.447 0.437 0.346 -13.691 1.816 12 A_A18:U27_A A 18 ? A 27 ? 20 1 1 A U 19 1_555 A A 26 1_555 0.053 -0.252 0.005 -0.188 -10.665 -2.341 13 A_U19:A26_A A 19 ? A 26 ? 20 1 1 A A 20 1_555 A U 25 1_555 0.373 -0.192 0.548 4.827 -3.398 0.114 14 A_A20:U25_A A 20 ? A 25 ? 20 1 1 A U 21 1_555 A G 24 1_555 1.083 -5.131 0.591 -16.730 3.032 -107.336 15 A_U21:G24_A A 21 ? A 24 ? ? 6 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 2 1_555 A U 48 1_555 A G 3 1_555 A C 47 1_555 -0.180 -1.675 3.433 0.469 5.394 38.412 -3.192 0.329 3.176 8.149 -0.708 38.777 1 AA_G2G3:C47U48_AA A 2 ? A 48 ? A 3 ? A 47 ? 1 A G 3 1_555 A C 47 1_555 A A 4 1_555 A G 46 1_555 -0.740 -1.663 3.095 3.181 7.657 35.428 -3.609 1.579 2.617 12.374 -5.140 36.355 2 AA_G3A4:G46C47_AA A 3 ? A 47 ? A 4 ? A 46 ? 1 A A 4 1_555 A G 46 1_555 A C 5 1_555 A G 45 1_555 -0.773 -2.246 3.027 7.131 -0.094 30.389 -4.161 2.659 2.785 -0.177 -13.373 31.195 3 AA_A4C5:G45G46_AA A 4 ? A 46 ? A 5 ? A 45 ? 1 A C 5 1_555 A G 45 1_555 A U 36 1_555 A U 43 1_555 1.928 -2.826 -3.976 -91.193 -147.699 150.929 -1.818 -0.714 -3.501 -73.937 45.650 178.390 4 AA_C5U36:U43G45_AA A 5 ? A 45 ? A 36 ? A 43 ? 1 A G 7 1_555 A G 35 1_555 A U 13 1_555 A A 34 1_555 1.386 -0.515 6.460 -1.182 -3.084 -146.077 0.297 0.714 6.460 1.612 -0.618 -146.092 5 AA_G7U13:A34G35_AA A 7 ? A 35 ? A 13 ? A 34 ? 1 A U 13 1_555 A A 34 1_555 A C 14 1_555 A G 33 1_555 0.666 -1.948 2.859 -2.618 10.940 28.511 -5.332 -1.655 1.930 21.199 5.072 30.607 6 AA_U13C14:G33A34_AA A 13 ? A 34 ? A 14 ? A 33 ? 1 A C 14 1_555 A G 33 1_555 A C 15 1_555 A G 30 1_555 1.295 -1.228 3.154 -0.050 4.760 48.371 -1.838 -1.578 3.026 5.793 0.061 48.590 7 AA_C14C15:G30G33_AA A 14 ? A 33 ? A 15 ? A 30 ? 1 A C 15 1_555 A G 30 1_555 A A 16 1_555 A U 29 1_555 0.072 -1.612 3.133 1.281 11.841 27.629 -5.205 0.088 2.266 23.462 -2.538 30.041 8 AA_C15A16:U29G30_AA A 15 ? A 30 ? A 16 ? A 29 ? 1 A A 16 1_555 A U 29 1_555 A G 17 1_555 A C 28 1_555 0.121 -1.334 3.150 -0.696 7.213 34.058 -3.244 -0.300 2.814 12.145 1.172 34.798 9 AA_A16G17:C28U29_AA A 16 ? A 29 ? A 17 ? A 28 ? 1 A G 17 1_555 A C 28 1_555 A A 18 1_555 A U 27 1_555 0.488 -1.455 3.015 -2.599 6.353 33.767 -3.325 -1.179 2.661 10.798 4.417 34.438 10 AA_G17A18:U27C28_AA A 17 ? A 28 ? A 18 ? A 27 ? 1 A A 18 1_555 A U 27 1_555 A U 19 1_555 A A 26 1_555 -0.254 -1.412 3.126 4.210 3.262 36.944 -2.610 0.917 2.950 5.116 -6.601 37.312 11 AA_A18U19:A26U27_AA A 18 ? A 27 ? A 19 ? A 26 ? 1 A U 19 1_555 A A 26 1_555 A A 20 1_555 A U 25 1_555 0.748 -1.592 2.853 -2.360 4.862 32.162 -3.538 -1.674 2.532 8.700 4.222 32.601 12 AA_U19A20:U25A26_AA A 19 ? A 26 ? A 20 ? A 25 ? 1 A A 20 1_555 A U 25 1_555 A U 21 1_555 A G 24 1_555 -1.510 -0.684 3.557 12.430 6.730 94.862 -0.586 1.249 3.349 4.550 -8.403 95.660 13 AA_A20U21:G24U25_AA A 20 ? A 25 ? A 21 ? A 24 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Natural Science Foundation of China (NSFC)' China 32171191 1 'National Natural Science Foundation of China (NSFC)' China 32400021 2 # _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 8K7W _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'P 21 2 21' _space_group.name_Hall 'P 2 2ab (y,z,x)' _space_group.IT_number 18 _space_group.crystal_system orthorhombic _space_group.id 1 # _atom_sites.entry_id 9VMZ _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] 0.028903 _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] 0.019601 _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] 0.010843 _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 _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? F ? ? 8.95735 ? ? ? 7.27484 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? K ? ? 16.37977 2.54835 ? ? 4.54127 84.28225 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? NA ? ? 9.38062 1.54875 ? ? 3.38349 72.32734 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_ # loop_ #