data_6FZ0 # _entry.id 6FZ0 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 6FZ0 pdb_00006fz0 10.2210/pdb6fz0/pdb WWPDB D_1200009159 ? ? # 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 2018-07-04 2 'Structure model' 1 1 2018-08-08 3 'Structure model' 1 2 2024-05-08 # _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' 'Data collection' 2 2 'Structure model' 'Database references' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Derived calculations' # 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' chem_comp_atom 4 3 'Structure model' chem_comp_bond 5 3 'Structure model' database_2 6 3 'Structure model' pdbx_struct_conn_angle 7 3 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation_author.name' 5 3 'Structure model' '_database_2.pdbx_DOI' 6 3 'Structure model' '_database_2.pdbx_database_accession' 7 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 8 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 9 3 'Structure model' '_pdbx_struct_conn_angle.value' 10 3 'Structure model' '_struct_conn.pdbx_dist_value' 11 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6FZ0 _pdbx_database_status.recvd_initial_deposition_date 2018-03-13 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Huang, L.' 1 ? 'Lilley, D.M.J.' 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 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 46 _citation.language ? _citation.page_first 6869 _citation.page_last 6879 _citation.title 'Structure and ligand binding of the SAM-V riboswitch.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gky520 _citation.pdbx_database_id_PubMed 29931337 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huang, L.' 1 ? primary 'Lilley, D.M.J.' 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 'metY SAM V (53-MER)' 17126.105 1 ? ? ? ? 2 non-polymer syn 'SULFATE ION' 96.063 1 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 2 ? ? ? ? 4 non-polymer syn S-ADENOSYLMETHIONINE 398.437 1 ? ? ? ? 5 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 6 water nat water 18.015 13 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'AGG(CBV)GCAUUUGAACUGUAUUGUACGCCUUGCAUAAAGCAAAAGUACUAAAAAA' _entity_poly.pdbx_seq_one_letter_code_can AGGCGCAUUUGAACUGUAUUGUACGCCUUGCAUAAAGCAAAAGUACUAAAAAA _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 'SULFATE ION' SO4 3 'SODIUM ION' NA 4 S-ADENOSYLMETHIONINE SAM 5 'MAGNESIUM ION' MG 6 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 G n 1 3 G n 1 4 CBV n 1 5 G n 1 6 C n 1 7 A n 1 8 U n 1 9 U n 1 10 U n 1 11 G n 1 12 A n 1 13 A n 1 14 C n 1 15 U n 1 16 G n 1 17 U n 1 18 A n 1 19 U n 1 20 U n 1 21 G n 1 22 U n 1 23 A n 1 24 C n 1 25 G n 1 26 C n 1 27 C n 1 28 U n 1 29 U n 1 30 G n 1 31 C n 1 32 A n 1 33 U n 1 34 A n 1 35 A n 1 36 A n 1 37 G n 1 38 C n 1 39 A n 1 40 A n 1 41 A n 1 42 A n 1 43 G n 1 44 U n 1 45 A n 1 46 C n 1 47 U n 1 48 A n 1 49 A n 1 50 A n 1 51 A n 1 52 A n 1 53 A 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 53 _pdbx_entity_src_syn.organism_scientific 'Candidatus Pelagibacter ubique HTCC1062' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 335992 _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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CBV 'RNA linking' n ;5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) ; ? 'C9 H13 Br N3 O8 P' 402.093 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 SAM non-polymer . S-ADENOSYLMETHIONINE ? 'C15 H22 N6 O5 S' 398.437 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 A 1 1 1 A A 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 CBV 4 4 4 CBV CBV A . n A 1 5 G 5 5 5 G G A . n A 1 6 C 6 6 6 C C A . n A 1 7 A 7 7 7 A A A . n A 1 8 U 8 8 8 U U A . n A 1 9 U 9 9 9 U U A . n A 1 10 U 10 10 10 U U A . n A 1 11 G 11 11 11 G G A . n A 1 12 A 12 12 12 A A A . n A 1 13 A 13 13 13 A A A . n A 1 14 C 14 14 14 C C A . n A 1 15 U 15 15 15 U U A . n A 1 16 G 16 16 16 G G A . n A 1 17 U 17 17 17 U U 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 U 20 20 20 U U A . n A 1 21 G 21 21 21 G G A . n A 1 22 U 22 22 22 U U A . n A 1 23 A 23 23 23 A A A . n A 1 24 C 24 24 24 C C A . n A 1 25 G 25 25 25 G G A . n A 1 26 C 26 26 26 C C A . n A 1 27 C 27 27 27 C C A . n A 1 28 U 28 28 28 U U 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 C 31 31 31 C C A . n A 1 32 A 32 32 32 A A A . n A 1 33 U 33 33 ? ? ? A . n A 1 34 A 34 34 ? ? ? A . n A 1 35 A 35 35 ? ? ? A . n A 1 36 A 36 36 ? ? ? A . n A 1 37 G 37 37 37 G G A . n A 1 38 C 38 38 38 C C A . n A 1 39 A 39 39 39 A A A . n A 1 40 A 40 40 40 A A A . n A 1 41 A 41 41 41 A A A . n A 1 42 A 42 42 42 A A A . n A 1 43 G 43 43 43 G G A . n A 1 44 U 44 44 44 U U A . n A 1 45 A 45 45 45 A A A . n A 1 46 C 46 46 46 C C A . n A 1 47 U 47 47 47 U U A . n A 1 48 A 48 48 48 A A A . n A 1 49 A 49 49 49 A A A . n A 1 50 A 50 50 50 A A A . n A 1 51 A 51 51 51 A A A . n A 1 52 A 52 52 52 A A A . n A 1 53 A 53 53 ? ? ? A . 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 B 2 SO4 1 101 1 SO4 SO4 A . C 3 NA 1 102 1 NA NA A . D 3 NA 1 103 2 NA NA A . E 4 SAM 1 104 1 SAM SAM A . F 5 MG 1 105 1 MG MG A . G 6 HOH 1 201 2 HOH HOH A . G 6 HOH 2 202 3 HOH HOH A . G 6 HOH 3 203 7 HOH HOH A . G 6 HOH 4 204 10 HOH HOH A . G 6 HOH 5 205 8 HOH HOH A . G 6 HOH 6 206 6 HOH HOH A . G 6 HOH 7 207 4 HOH HOH A . G 6 HOH 8 208 1 HOH HOH A . G 6 HOH 9 209 5 HOH HOH A . G 6 HOH 10 210 13 HOH HOH A . G 6 HOH 11 211 9 HOH HOH A . G 6 HOH 12 212 12 HOH HOH A . G 6 HOH 13 213 11 HOH HOH A . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A A 12 ? N9 ? A A 12 N9 2 1 Y 1 A A 12 ? C8 ? A A 12 C8 3 1 Y 1 A A 12 ? N7 ? A A 12 N7 4 1 Y 1 A A 12 ? C5 ? A A 12 C5 5 1 Y 1 A A 12 ? C6 ? A A 12 C6 6 1 Y 1 A A 12 ? N6 ? A A 12 N6 7 1 Y 1 A A 12 ? N1 ? A A 12 N1 8 1 Y 1 A A 12 ? C2 ? A A 12 C2 9 1 Y 1 A A 12 ? N3 ? A A 12 N3 10 1 Y 1 A A 12 ? C4 ? A A 12 C4 # 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 ? ? ? '(1.13_2998: ???)' 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 4 # _cell.entry_id 6FZ0 _cell.length_a 87.828 _cell.length_b 87.828 _cell.length_c 62.670 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FZ0 _symmetry.space_group_name_H-M 'P 41 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 # _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 6FZ0 _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 3.67 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 63 _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_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 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 280 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.2MPotassium chloride 0.01MCalcium chloride dihydrate 0.05MBis-Tris7.0 40% v/vPEG 400 ; _exptl_crystal_grow.pdbx_pH_range ? # _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_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 2018-02-02 # _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 0.9196 _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 'DIAMOND BEAMLINE I03' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9196 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline I03 _diffrn_source.pdbx_synchrotron_site Diamond # _reflns.B_iso_Wilson_estimate 74.27 _reflns.entry_id 6FZ0 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.499 _reflns.d_resolution_low 44.113 _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 15977 _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 2.1 _reflns.percent_possible_obs 100 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 13.8 _reflns.pdbx_Rmerge_I_obs 0.083 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 16.8 _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 0.086 _reflns.pdbx_Rpim_I_all 0.023 _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_R_split ? # _reflns_shell.d_res_high 2.50 _reflns_shell.d_res_low 2.54 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 428 _reflns_shell.percent_possible_all 99.3 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.976 _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 13.2 _reflns_shell.pdbx_Rsym_value ? _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 0.276 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.4 _reflns_shell.pdbx_R_split ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 6FZ0 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 15977 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.33 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 44.113 _refine.ls_d_res_high 2.499 _refine.ls_percent_reflns_obs 98.33 _refine.ls_R_factor_obs 0.2338 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2314 _refine.ls_R_factor_R_free 0.2699 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.13 _refine.ls_number_reflns_R_free 820 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.49 _refine.pdbx_overall_phase_error 37.15 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1013 _refine_hist.pdbx_number_atoms_ligand 35 _refine_hist.number_atoms_solvent 13 _refine_hist.number_atoms_total 1061 _refine_hist.d_res_high 2.499 _refine_hist.d_res_low 44.113 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.002 ? ? 1165 'X-RAY DIFFRACTION' ? f_angle_d 0.601 ? ? 1809 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 18.149 ? ? 576 'X-RAY DIFFRACTION' ? f_chiral_restr 0.024 ? ? 242 'X-RAY DIFFRACTION' ? f_plane_restr 0.002 ? ? 49 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all 'X-RAY DIFFRACTION' . 2.4989 2.6555 2420 0.4438 95.00 0.4444 . . 142 . . 'X-RAY DIFFRACTION' . 2.6555 2.8604 2497 0.3895 98.00 0.4376 . . 140 . . 'X-RAY DIFFRACTION' . 2.8604 3.1482 2543 0.2810 99.00 0.3286 . . 140 . . 'X-RAY DIFFRACTION' . 3.1482 3.6036 2531 0.2079 99.00 0.1943 . . 140 . . 'X-RAY DIFFRACTION' . 3.6036 4.5394 2581 0.1951 100.00 0.2306 . . 127 . . 'X-RAY DIFFRACTION' . 4.5394 44.1196 2585 0.2140 100.00 0.2736 . . 131 . . # _struct.entry_id 6FZ0 _struct.title 'Crystal structure of the metY SAM V riboswitch' _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 6FZ0 _struct_keywords.text 'SAM V riboswitch, pseudoknot, RNA, gene regulation' _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 3 ? E N N 4 ? F N N 5 ? G N N 6 ? # _struct_ref.id 1 _struct_ref.db_name GB _struct_ref.db_code CP000084.1 _struct_ref.pdbx_db_accession 71061822 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code AGGCGCAUUUGAACUGUAUUGUACGCCUUGCAUAAAGCAAAAGUACUAAAAAA _struct_ref.pdbx_align_begin 1005827 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6FZ0 _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 53 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 71061822 _struct_ref_seq.db_align_beg 1005827 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 1005879 _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 53 # _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 # 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)' 1320 ? 1 MORE -38 ? 1 'SSA (A^2)' 8260 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _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 ? # _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 covale1 covale both ? A G 3 "O3'" ? ? ? 1_555 A CBV 4 P ? ? A G 3 A CBV 4 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale2 covale one ? A CBV 4 "O3'" ? ? ? 1_555 A G 5 P ? ? A CBV 4 A G 5 1_555 ? ? ? ? ? ? ? 1.608 ? ? metalc1 metalc ? ? A U 10 OP2 ? ? ? 1_555 F MG . MG ? ? A U 10 A MG 105 1_555 ? ? ? ? ? ? ? 2.228 ? ? metalc2 metalc ? ? A U 17 OP1 ? ? ? 1_555 C NA . NA ? ? A U 17 A NA 102 1_555 ? ? ? ? ? ? ? 2.358 ? ? metalc3 metalc ? ? A A 51 OP2 ? ? ? 1_555 D NA . NA ? ? A A 51 A NA 103 1_555 ? ? ? ? ? ? ? 2.372 ? ? metalc4 metalc ? ? C NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 102 A HOH 201 1_555 ? ? ? ? ? ? ? 2.595 ? ? metalc5 metalc ? ? D NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 103 A HOH 211 1_555 ? ? ? ? ? ? ? 2.579 ? ? metalc6 metalc ? ? F MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 105 A HOH 204 1_555 ? ? ? ? ? ? ? 2.420 ? ? metalc7 metalc ? ? F MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 105 A HOH 206 1_555 ? ? ? ? ? ? ? 2.245 ? ? metalc8 metalc ? ? F MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 105 A HOH 207 1_555 ? ? ? ? ? ? ? 2.300 ? ? metalc9 metalc ? ? F MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 105 A HOH 208 1_555 ? ? ? ? ? ? ? 2.288 ? ? hydrog1 hydrog ? ? A A 1 N1 ? ? ? 1_555 A U 28 N3 ? ? A A 1 A U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A A 1 N6 ? ? ? 1_555 A U 28 O4 ? ? A A 1 A U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 27 N3 ? ? A G 2 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 27 O2 ? ? A G 2 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 27 N4 ? ? A G 2 A C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 26 N3 ? ? A G 3 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 26 O2 ? ? A G 3 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 26 N4 ? ? A G 3 A C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 N2 ? ? ? 1_555 A A 42 N3 ? ? A G 3 A A 42 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog10 hydrog ? ? A CBV 4 N3 ? ? ? 1_555 A G 25 N1 ? ? A CBV 4 A G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A CBV 4 N4 ? ? ? 1_555 A G 25 O6 ? ? A CBV 4 A G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A CBV 4 O2 ? ? ? 1_555 A G 25 N2 ? ? A CBV 4 A G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 N1 ? ? ? 1_555 A A 45 N7 ? ? A G 5 A A 45 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog14 hydrog ? ? A G 5 O6 ? ? ? 1_555 A A 45 N6 ? ? A G 5 A A 45 1_555 ? ? ? ? ? ? TYPE_9_PAIR ? ? ? hydrog15 hydrog ? ? A A 7 N6 ? ? ? 1_555 A G 21 O6 ? ? A A 7 A G 21 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog16 hydrog ? ? A A 7 N1 ? ? ? 1_555 A C 46 N4 ? ? A A 7 A C 46 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog17 hydrog ? ? A U 8 N3 ? ? ? 1_555 A U 47 O4 ? ? A U 8 A U 47 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog18 hydrog ? ? A U 9 N3 ? ? ? 1_555 A A 48 N7 ? ? A U 9 A A 48 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog19 hydrog ? ? A U 9 O4 ? ? ? 1_555 A A 48 N6 ? ? A U 9 A A 48 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog20 hydrog ? ? A U 10 N3 ? ? ? 1_555 A A 49 N7 ? ? A U 10 A A 49 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog21 hydrog ? ? A U 10 O4 ? ? ? 1_555 A A 49 N6 ? ? A U 10 A A 49 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog22 hydrog ? ? A G 11 N1 ? ? ? 1_555 A U 17 O4 ? ? A G 11 A U 17 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog23 hydrog ? ? A U 15 N3 ? ? ? 1_555 A A 51 N7 ? ? A U 15 A A 51 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog24 hydrog ? ? A U 15 O2 ? ? ? 1_555 A A 51 N6 ? ? A U 15 A A 51 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog25 hydrog ? ? A U 17 N3 ? ? ? 1_555 A A 52 N1 ? ? A U 17 A A 52 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog26 hydrog ? ? A U 17 O2 ? ? ? 1_555 A A 52 N6 ? ? A U 17 A A 52 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog27 hydrog ? ? A A 18 N6 ? ? ? 1_555 A A 50 N3 ? ? A A 18 A A 50 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog28 hydrog ? ? A U 19 N3 ? ? ? 1_555 A A 49 N1 ? ? A U 19 A A 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A U 19 O4 ? ? ? 1_555 A A 49 N6 ? ? A U 19 A A 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A U 20 N3 ? ? ? 1_555 A A 48 N1 ? ? A U 20 A A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A U 20 O4 ? ? ? 1_555 A A 48 N6 ? ? A U 20 A A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 21 N1 ? ? ? 1_555 A C 46 N3 ? ? A G 21 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 21 N2 ? ? ? 1_555 A C 46 O2 ? ? A G 21 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 21 O6 ? ? ? 1_555 A C 46 N4 ? ? A G 21 A C 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A U 22 N3 ? ? ? 1_555 A A 45 N1 ? ? A U 22 A A 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A U 22 O4 ? ? ? 1_555 A A 45 N6 ? ? A U 22 A A 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A A 23 N1 ? ? ? 1_555 A U 44 N3 ? ? A A 23 A U 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A A 23 N6 ? ? ? 1_555 A U 44 O4 ? ? A A 23 A U 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 24 N3 ? ? ? 1_555 A G 43 N1 ? ? A C 24 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 24 N4 ? ? ? 1_555 A G 43 O6 ? ? A C 24 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A C 24 O2 ? ? ? 1_555 A G 43 N2 ? ? A C 24 A G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A U 29 N3 ? ? ? 1_555 A A 39 N1 ? ? A U 29 A A 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A U 29 O4 ? ? ? 1_555 A A 39 N6 ? ? A U 29 A A 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A G 30 N1 ? ? ? 1_555 A C 38 N3 ? ? A G 30 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A G 30 N2 ? ? ? 1_555 A C 38 O2 ? ? A G 30 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A G 30 O6 ? ? ? 1_555 A C 38 N4 ? ? A G 30 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A C 31 N3 ? ? ? 1_555 A C 38 N4 ? ? A C 31 A C 38 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? # 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 OP2 ? A U 10 ? A U 10 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 204 ? 1_555 160.9 ? 2 OP2 ? A U 10 ? A U 10 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 206 ? 1_555 75.3 ? 3 O ? G HOH . ? A HOH 204 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 206 ? 1_555 103.4 ? 4 OP2 ? A U 10 ? A U 10 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 207 ? 1_555 82.6 ? 5 O ? G HOH . ? A HOH 204 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 207 ? 1_555 91.4 ? 6 O ? G HOH . ? A HOH 206 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 207 ? 1_555 151.1 ? 7 OP2 ? A U 10 ? A U 10 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 208 ? 1_555 80.2 ? 8 O ? G HOH . ? A HOH 204 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 208 ? 1_555 80.7 ? 9 O ? G HOH . ? A HOH 206 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 208 ? 1_555 89.9 ? 10 O ? G HOH . ? A HOH 207 ? 1_555 MG ? F MG . ? A MG 105 ? 1_555 O ? G HOH . ? A HOH 208 ? 1_555 67.8 ? 11 OP1 ? A U 17 ? A U 17 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O ? G HOH . ? A HOH 201 ? 1_555 61.0 ? 12 OP2 ? A A 51 ? A A 51 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O ? G HOH . ? A HOH 211 ? 1_555 89.0 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A SO4 101 ? 4 'binding site for residue SO4 A 101' AC2 Software A NA 102 ? 2 'binding site for residue NA A 102' AC3 Software A NA 103 ? 2 'binding site for residue NA A 103' AC4 Software A SAM 104 ? 16 'binding site for residue SAM A 104' AC5 Software A MG 105 ? 6 'binding site for residue MG A 105' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 G A 2 ? G A 2 . ? 1_555 ? 2 AC1 4 G A 3 ? G A 3 . ? 1_555 ? 3 AC1 4 G A 25 ? G A 25 . ? 1_555 ? 4 AC1 4 C A 26 ? C A 26 . ? 1_555 ? 5 AC2 2 U A 17 ? U A 17 . ? 1_555 ? 6 AC2 2 HOH G . ? HOH A 201 . ? 1_555 ? 7 AC3 2 A A 51 ? A A 51 . ? 1_555 ? 8 AC3 2 HOH G . ? HOH A 211 . ? 1_555 ? 9 AC4 16 A A 7 ? A A 7 . ? 1_555 ? 10 AC4 16 U A 8 ? U A 8 . ? 1_555 ? 11 AC4 16 U A 9 ? U A 9 . ? 1_555 ? 12 AC4 16 U A 10 ? U A 10 . ? 1_555 ? 13 AC4 16 G A 11 ? G A 11 . ? 1_555 ? 14 AC4 16 U A 17 ? U A 17 . ? 1_555 ? 15 AC4 16 U A 19 ? U A 19 . ? 1_555 ? 16 AC4 16 U A 20 ? U A 20 . ? 1_555 ? 17 AC4 16 G A 21 ? G A 21 . ? 1_555 ? 18 AC4 16 U A 47 ? U A 47 . ? 1_555 ? 19 AC4 16 A A 48 ? A A 48 . ? 1_555 ? 20 AC4 16 A A 50 ? A A 50 . ? 1_555 ? 21 AC4 16 HOH G . ? HOH A 203 . ? 1_555 ? 22 AC4 16 HOH G . ? HOH A 206 . ? 1_555 ? 23 AC4 16 HOH G . ? HOH A 208 . ? 1_555 ? 24 AC4 16 HOH G . ? HOH A 209 . ? 1_555 ? 25 AC5 6 U A 10 ? U A 10 . ? 1_555 ? 26 AC5 6 G A 16 ? G A 16 . ? 1_555 ? 27 AC5 6 HOH G . ? HOH A 204 . ? 1_555 ? 28 AC5 6 HOH G . ? HOH A 206 . ? 1_555 ? 29 AC5 6 HOH G . ? HOH A 207 . ? 1_555 ? 30 AC5 6 HOH G . ? HOH A 208 . ? 1_555 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 "O3'" A G 3 ? ? O3P A CBV 4 ? ? 0.45 2 1 "HO3'" A CBV 4 ? ? P A G 5 ? ? 0.79 3 1 O A HOH 203 ? ? O A HOH 204 ? ? 1.95 # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id CBV _pdbx_struct_mod_residue.label_seq_id 4 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id CBV _pdbx_struct_mod_residue.auth_seq_id 4 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id C _pdbx_struct_mod_residue.details 'modified residue' # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 202 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id G _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.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[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 29.7597 84.4029 34.6481 0.6284 0.7423 0.8972 -0.0760 0.0269 -0.0670 3.9654 2.4014 3.4734 2.8014 0.2811 0.6881 -0.1018 0.7463 -0.7072 -0.4379 0.5516 -1.2395 0.3780 -0.4015 -0.4685 'X-RAY DIFFRACTION' 2 ? refined 30.2028 83.4284 35.3072 0.4087 0.5233 0.4673 0.0320 -0.0134 -0.1119 6.3576 2.8068 3.4064 1.0376 -1.5459 -2.2318 0.0704 0.2296 -0.6050 -0.2649 -0.1255 0.0110 0.3053 -0.3831 0.0421 'X-RAY DIFFRACTION' 3 ? refined 34.6809 59.0310 27.7717 1.4867 1.7253 2.1071 -0.0992 0.0995 -0.5298 4.3637 8.1124 3.7021 -5.9486 4.0196 -5.4789 0.6227 0.0440 -1.5823 -0.8890 -0.4404 -0.9332 1.7593 1.3494 -0.1304 'X-RAY DIFFRACTION' 4 ? refined 30.0069 88.3719 36.4382 0.5170 0.6286 0.5652 -0.0311 0.0395 0.0495 6.3998 7.1398 6.9658 1.9548 -1.0468 0.8861 0.1420 0.4175 -0.1935 -0.1829 -0.0228 0.3174 0.2549 -0.3524 -0.1572 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 1 through 11 ) ; 'X-RAY DIFFRACTION' 2 2 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 12 through 31 ) ; 'X-RAY DIFFRACTION' 3 3 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 32 through 40 ) ; 'X-RAY DIFFRACTION' 4 4 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 41 through 52 ) ; # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A U 33 ? A U 33 2 1 Y 1 A A 34 ? A A 34 3 1 Y 1 A A 35 ? A A 35 4 1 Y 1 A A 36 ? A A 36 5 1 Y 1 A A 53 ? A A 53 # 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 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 CBV O3P O N N 73 CBV P P N N 74 CBV O1P O N N 75 CBV O2P O N N 76 CBV "O5'" O N N 77 CBV "C5'" C N N 78 CBV "C4'" C N R 79 CBV "O4'" O N N 80 CBV "C3'" C N S 81 CBV "O3'" O N N 82 CBV "C2'" C N R 83 CBV "O2'" O N N 84 CBV "C1'" C N R 85 CBV N1 N N N 86 CBV C2 C N N 87 CBV O2 O N N 88 CBV N3 N N N 89 CBV C4 C N N 90 CBV N4 N N N 91 CBV C5 C N N 92 CBV C6 C N N 93 CBV BR BR N N 94 CBV HO3P H N N 95 CBV HO1P H N N 96 CBV "H5'1" H N N 97 CBV "H5'2" H N N 98 CBV "H4'" H N N 99 CBV "H3'" H N N 100 CBV "HO3'" H N N 101 CBV "H2'" H N N 102 CBV "HO2'" H N N 103 CBV "H1'" H N N 104 CBV HN41 H N N 105 CBV HN42 H N N 106 CBV H6 H N N 107 G OP3 O N N 108 G P P N N 109 G OP1 O N N 110 G OP2 O N N 111 G "O5'" O N N 112 G "C5'" C N N 113 G "C4'" C N R 114 G "O4'" O N N 115 G "C3'" C N S 116 G "O3'" O N N 117 G "C2'" C N R 118 G "O2'" O N N 119 G "C1'" C N R 120 G N9 N Y N 121 G C8 C Y N 122 G N7 N Y N 123 G C5 C Y N 124 G C6 C N N 125 G O6 O N N 126 G N1 N N N 127 G C2 C N N 128 G N2 N N N 129 G N3 N N N 130 G C4 C Y N 131 G HOP3 H N N 132 G HOP2 H N N 133 G "H5'" H N N 134 G "H5''" H N N 135 G "H4'" H N N 136 G "H3'" H N N 137 G "HO3'" H N N 138 G "H2'" H N N 139 G "HO2'" H N N 140 G "H1'" H N N 141 G H8 H N N 142 G H1 H N N 143 G H21 H N N 144 G H22 H N N 145 HOH O O N N 146 HOH H1 H N N 147 HOH H2 H N N 148 MG MG MG N N 149 NA NA NA N N 150 SAM N N N N 151 SAM CA C N S 152 SAM C C N N 153 SAM O O N N 154 SAM OXT O N N 155 SAM CB C N N 156 SAM CG C N N 157 SAM SD S N S 158 SAM CE C N N 159 SAM "C5'" C N N 160 SAM "C4'" C N S 161 SAM "O4'" O N N 162 SAM "C3'" C N S 163 SAM "O3'" O N N 164 SAM "C2'" C N R 165 SAM "O2'" O N N 166 SAM "C1'" C N R 167 SAM N9 N Y N 168 SAM C8 C Y N 169 SAM N7 N Y N 170 SAM C5 C Y N 171 SAM C6 C Y N 172 SAM N6 N N N 173 SAM N1 N Y N 174 SAM C2 C Y N 175 SAM N3 N Y N 176 SAM C4 C Y N 177 SAM HN1 H N N 178 SAM HN2 H N N 179 SAM HA H N N 180 SAM HB1 H N N 181 SAM HB2 H N N 182 SAM HG1 H N N 183 SAM HG2 H N N 184 SAM HE1 H N N 185 SAM HE2 H N N 186 SAM HE3 H N N 187 SAM "H5'1" H N N 188 SAM "H5'2" H N N 189 SAM "H4'" H N N 190 SAM "H3'" H N N 191 SAM "HO3'" H N N 192 SAM "H2'" H N N 193 SAM "HO2'" H N N 194 SAM "H1'" H N N 195 SAM H8 H N N 196 SAM HN61 H N N 197 SAM HN62 H N N 198 SAM H2 H N N 199 SO4 S S N N 200 SO4 O1 O N N 201 SO4 O2 O N N 202 SO4 O3 O N N 203 SO4 O4 O 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 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 CBV O3P P sing N N 76 CBV O3P HO3P sing N N 77 CBV P O1P sing N N 78 CBV P O2P doub N N 79 CBV P "O5'" sing N N 80 CBV O1P HO1P sing N N 81 CBV "O5'" "C5'" sing N N 82 CBV "C5'" "C4'" sing N N 83 CBV "C5'" "H5'1" sing N N 84 CBV "C5'" "H5'2" sing N N 85 CBV "C4'" "O4'" sing N N 86 CBV "C4'" "C3'" sing N N 87 CBV "C4'" "H4'" sing N N 88 CBV "O4'" "C1'" sing N N 89 CBV "C3'" "O3'" sing N N 90 CBV "C3'" "C2'" sing N N 91 CBV "C3'" "H3'" sing N N 92 CBV "O3'" "HO3'" sing N N 93 CBV "C2'" "O2'" sing N N 94 CBV "C2'" "C1'" sing N N 95 CBV "C2'" "H2'" sing N N 96 CBV "O2'" "HO2'" sing N N 97 CBV "C1'" N1 sing N N 98 CBV "C1'" "H1'" sing N N 99 CBV N1 C2 sing N N 100 CBV N1 C6 sing N N 101 CBV C2 O2 doub N N 102 CBV C2 N3 sing N N 103 CBV N3 C4 doub N N 104 CBV C4 N4 sing N N 105 CBV C4 C5 sing N N 106 CBV N4 HN41 sing N N 107 CBV N4 HN42 sing N N 108 CBV C5 C6 doub N N 109 CBV C5 BR sing N N 110 CBV C6 H6 sing N N 111 G OP3 P sing N N 112 G OP3 HOP3 sing N N 113 G P OP1 doub N N 114 G P OP2 sing N N 115 G P "O5'" sing N N 116 G OP2 HOP2 sing N N 117 G "O5'" "C5'" sing N N 118 G "C5'" "C4'" sing N N 119 G "C5'" "H5'" sing N N 120 G "C5'" "H5''" sing N N 121 G "C4'" "O4'" sing N N 122 G "C4'" "C3'" sing N N 123 G "C4'" "H4'" sing N N 124 G "O4'" "C1'" sing N N 125 G "C3'" "O3'" sing N N 126 G "C3'" "C2'" sing N N 127 G "C3'" "H3'" sing N N 128 G "O3'" "HO3'" sing N N 129 G "C2'" "O2'" sing N N 130 G "C2'" "C1'" sing N N 131 G "C2'" "H2'" sing N N 132 G "O2'" "HO2'" sing N N 133 G "C1'" N9 sing N N 134 G "C1'" "H1'" sing N N 135 G N9 C8 sing Y N 136 G N9 C4 sing Y N 137 G C8 N7 doub Y N 138 G C8 H8 sing N N 139 G N7 C5 sing Y N 140 G C5 C6 sing N N 141 G C5 C4 doub Y N 142 G C6 O6 doub N N 143 G C6 N1 sing N N 144 G N1 C2 sing N N 145 G N1 H1 sing N N 146 G C2 N2 sing N N 147 G C2 N3 doub N N 148 G N2 H21 sing N N 149 G N2 H22 sing N N 150 G N3 C4 sing N N 151 HOH O H1 sing N N 152 HOH O H2 sing N N 153 SAM N CA sing N N 154 SAM N HN1 sing N N 155 SAM N HN2 sing N N 156 SAM CA C sing N N 157 SAM CA CB sing N N 158 SAM CA HA sing N N 159 SAM C O doub N N 160 SAM C OXT sing N N 161 SAM CB CG sing N N 162 SAM CB HB1 sing N N 163 SAM CB HB2 sing N N 164 SAM CG SD sing N N 165 SAM CG HG1 sing N N 166 SAM CG HG2 sing N N 167 SAM SD CE sing N N 168 SAM SD "C5'" sing N N 169 SAM CE HE1 sing N N 170 SAM CE HE2 sing N N 171 SAM CE HE3 sing N N 172 SAM "C5'" "C4'" sing N N 173 SAM "C5'" "H5'1" sing N N 174 SAM "C5'" "H5'2" sing N N 175 SAM "C4'" "O4'" sing N N 176 SAM "C4'" "C3'" sing N N 177 SAM "C4'" "H4'" sing N N 178 SAM "O4'" "C1'" sing N N 179 SAM "C3'" "O3'" sing N N 180 SAM "C3'" "C2'" sing N N 181 SAM "C3'" "H3'" sing N N 182 SAM "O3'" "HO3'" sing N N 183 SAM "C2'" "O2'" sing N N 184 SAM "C2'" "C1'" sing N N 185 SAM "C2'" "H2'" sing N N 186 SAM "O2'" "HO2'" sing N N 187 SAM "C1'" N9 sing N N 188 SAM "C1'" "H1'" sing N N 189 SAM N9 C8 sing Y N 190 SAM N9 C4 sing Y N 191 SAM C8 N7 doub Y N 192 SAM C8 H8 sing N N 193 SAM N7 C5 sing Y N 194 SAM C5 C6 sing Y N 195 SAM C5 C4 doub Y N 196 SAM C6 N6 sing N N 197 SAM C6 N1 doub Y N 198 SAM N6 HN61 sing N N 199 SAM N6 HN62 sing N N 200 SAM N1 C2 sing Y N 201 SAM C2 N3 doub Y N 202 SAM C2 H2 sing N N 203 SAM N3 C4 sing Y N 204 SO4 S O1 doub N N 205 SO4 S O2 doub N N 206 SO4 S O3 sing N N 207 SO4 S O4 sing N N 208 U OP3 P sing N N 209 U OP3 HOP3 sing N N 210 U P OP1 doub N N 211 U P OP2 sing N N 212 U P "O5'" sing N N 213 U OP2 HOP2 sing N N 214 U "O5'" "C5'" sing N N 215 U "C5'" "C4'" sing N N 216 U "C5'" "H5'" sing N N 217 U "C5'" "H5''" sing N N 218 U "C4'" "O4'" sing N N 219 U "C4'" "C3'" sing N N 220 U "C4'" "H4'" sing N N 221 U "O4'" "C1'" sing N N 222 U "C3'" "O3'" sing N N 223 U "C3'" "C2'" sing N N 224 U "C3'" "H3'" sing N N 225 U "O3'" "HO3'" sing N N 226 U "C2'" "O2'" sing N N 227 U "C2'" "C1'" sing N N 228 U "C2'" "H2'" sing N N 229 U "O2'" "HO2'" sing N N 230 U "C1'" N1 sing N N 231 U "C1'" "H1'" sing N N 232 U N1 C2 sing N N 233 U N1 C6 sing N N 234 U C2 O2 doub N N 235 U C2 N3 sing N N 236 U N3 C4 sing N N 237 U N3 H3 sing N N 238 U C4 O4 doub N N 239 U C4 C5 sing N N 240 U C5 C6 doub N N 241 U C5 H5 sing N N 242 U C6 H6 sing N N 243 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6FZ0 'double helix' 6FZ0 'hairpin loop' 6FZ0 'bulge loop' 6FZ0 'mismatched base pair' 6FZ0 'quadruple 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 A 1 1_555 A U 28 1_555 -0.082 -0.050 0.581 7.372 -12.490 1.955 1 A_A1:U28_A A 1 ? A 28 ? 20 1 1 A G 2 1_555 A C 27 1_555 0.000 0.065 0.493 5.207 -20.808 2.470 2 A_G2:C27_A A 2 ? A 27 ? 19 1 1 A G 3 1_555 A C 26 1_555 -0.009 -0.052 -0.102 -14.932 -22.340 1.342 3 A_G3:C26_A A 3 ? A 26 ? 19 1 1 A CBV 4 1_555 A G 25 1_555 0.216 -0.120 0.376 -8.822 -9.449 -3.834 4 A_CBV4:G25_A A 4 ? A 25 ? 19 1 1 A G 43 1_555 A C 24 1_555 -0.134 -0.286 -0.405 -7.660 -5.007 1.173 5 A_G43:C24_A A 43 ? A 24 ? 19 1 1 A U 44 1_555 A A 23 1_555 -0.308 -0.113 0.007 -9.086 -6.428 -5.597 6 A_U44:A23_A A 44 ? A 23 ? 20 1 1 A A 45 1_555 A U 22 1_555 -0.140 -0.096 0.601 -4.291 -16.877 -2.415 7 A_A45:U22_A A 45 ? A 22 ? 20 1 1 A C 46 1_555 A G 21 1_555 -0.241 -0.135 0.464 -5.602 -12.672 -3.156 8 A_C46:G21_A A 46 ? A 21 ? 19 1 1 A U 47 1_555 A U 8 1_555 -0.354 -2.482 0.317 0.085 6.699 98.306 9 A_U47:U8_A A 47 ? A 8 ? ? ? 1 A A 48 1_555 A U 20 1_555 0.199 0.153 -0.497 -30.173 11.572 1.717 10 A_A48:U20_A A 48 ? A 20 ? 20 1 1 A A 49 1_555 A U 19 1_555 0.307 -0.132 -0.067 -9.857 1.775 4.649 11 A_A49:U19_A A 49 ? A 19 ? 20 1 1 A A 50 1_555 A A 18 1_555 6.724 -3.798 0.353 5.537 3.360 -5.186 12 A_A50:A18_A A 50 ? A 18 ? ? 5 1 A A 52 1_555 A U 17 1_555 0.375 2.063 0.691 1.093 16.743 176.298 13 A_A52:U17_A A 52 ? A 17 ? 21 2 1 A U 15 1_555 A A 51 1_555 4.062 -2.095 0.351 5.152 6.650 -88.982 14 A_U15:A51_A A 15 ? A 51 ? 24 4 1 A U 29 1_555 A A 39 1_555 0.410 0.252 0.393 -17.710 -5.395 7.659 15 A_U29:A39_A A 29 ? A 39 ? 20 1 1 A G 30 1_555 A C 38 1_555 1.150 0.306 -0.694 -9.202 -1.069 -2.129 16 A_G30:C38_A A 30 ? A 38 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A A 1 1_555 A U 28 1_555 A G 2 1_555 A C 27 1_555 0.018 -1.203 3.174 1.484 10.718 33.334 -3.480 0.174 2.670 18.101 -2.507 34.998 1 AA_A1G2:C27U28_AA A 1 ? A 28 ? A 2 ? A 27 ? 1 A G 2 1_555 A C 27 1_555 A G 3 1_555 A C 26 1_555 0.606 -1.898 3.671 6.040 9.735 32.618 -4.796 -0.029 3.057 16.704 -10.363 34.520 2 AA_G2G3:C26C27_AA A 2 ? A 27 ? A 3 ? A 26 ? 1 A G 3 1_555 A C 26 1_555 A CBV 4 1_555 A G 25 1_555 -0.611 -1.708 2.991 -3.910 1.227 37.186 -2.812 0.482 2.982 1.917 6.109 37.403 3 AA_G3CBV4:G25C26_AA A 3 ? A 26 ? A 4 ? A 25 ? 1 A CBV 4 1_555 A G 25 1_555 A G 43 1_555 A C 24 1_555 -1.048 -2.039 3.038 7.107 9.234 38.236 -3.874 2.218 2.282 13.714 -10.554 39.908 4 AA_CBV4G43:C24G25_AA A 4 ? A 25 ? A 43 ? A 24 ? 1 A G 43 1_555 A C 24 1_555 A U 44 1_555 A A 23 1_555 -0.941 -1.326 3.253 -4.749 6.717 30.879 -3.598 0.872 3.013 12.342 8.726 31.930 5 AA_G43U44:A23C24_AA A 43 ? A 24 ? A 44 ? A 23 ? 1 A U 44 1_555 A A 23 1_555 A A 45 1_555 A U 22 1_555 0.626 -1.602 3.006 -0.604 6.332 31.380 -3.900 -1.231 2.629 11.559 1.102 32.002 6 AA_U44A45:U22A23_AA A 44 ? A 23 ? A 45 ? A 22 ? 1 A A 45 1_555 A U 22 1_555 A C 46 1_555 A G 21 1_555 -0.026 -1.486 3.265 0.529 2.537 35.585 -2.787 0.118 3.154 4.144 -0.864 35.676 7 AA_A45C46:G21U22_AA A 45 ? A 22 ? A 46 ? A 21 ? 1 A C 46 1_555 A G 21 1_555 A U 47 1_555 A U 8 1_555 0.876 0.028 3.086 3.536 -1.448 -21.954 0.428 3.492 2.906 3.765 9.196 -22.280 8 AA_C46U47:U8G21_AA A 46 ? A 21 ? A 47 ? A 8 ? 1 A U 47 1_555 A U 8 1_555 A A 48 1_555 A U 20 1_555 -0.395 -4.229 4.367 18.201 5.088 52.872 -4.881 1.749 3.670 5.518 -19.741 55.919 9 AA_U47A48:U20U8_AA A 47 ? A 8 ? A 48 ? A 20 ? 1 A A 48 1_555 A U 20 1_555 A A 49 1_555 A U 19 1_555 0.205 -1.843 3.018 0.700 4.405 27.212 -4.814 -0.280 2.696 9.283 -1.476 27.568 10 AA_A48A49:U19U20_AA A 48 ? A 20 ? A 49 ? A 19 ? 1 A A 49 1_555 A U 19 1_555 A A 50 1_555 A A 18 1_555 0.488 -1.040 2.804 1.713 9.952 52.116 -1.698 -0.455 2.593 11.208 -1.929 53.018 11 AA_A49A50:A18U19_AA A 49 ? A 19 ? A 50 ? A 18 ? 1 A A 50 1_555 A A 18 1_555 A A 52 1_555 A U 17 1_555 3.928 2.031 1.802 154.592 -85.030 -176.418 -1.002 1.988 1.724 42.516 77.297 -179.889 12 AA_A50A52:U17A18_AA A 50 ? A 18 ? A 52 ? A 17 ? 1 A A 52 1_555 A U 17 1_555 A U 15 1_555 A A 51 1_555 4.082 0.766 -3.310 7.806 -0.967 -94.641 -0.538 2.625 -3.553 0.657 5.302 -94.889 13 AA_A52U15:A51U17_AA A 52 ? A 17 ? A 15 ? A 51 ? 1 A U 29 1_555 A A 39 1_555 A G 30 1_555 A C 38 1_555 -0.634 -1.604 3.327 2.930 4.473 31.495 -3.707 1.671 3.007 8.166 -5.349 31.935 14 AA_U29G30:C38A39_AA A 29 ? A 39 ? A 30 ? A 38 ? # _pdbx_audit_support.funding_organization 'Cancer Research UK' _pdbx_audit_support.country 'United Kingdom' _pdbx_audit_support.grant_number A18604 _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 6FZ0 _atom_sites.fract_transf_matrix[1][1] 0.011386 _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] 0.011386 _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] 0.015957 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol BR C H K MG N NA O P S # loop_