data_6YMM # _entry.id 6YMM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.392 _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 6YMM pdb_00006ymm 10.2210/pdb6ymm/pdb WWPDB D_1292107859 ? ? # 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 2020-07-22 2 'Structure model' 1 1 2020-07-29 3 'Structure model' 1 2 2024-05-15 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond 4 3 'Structure model' database_2 # 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 3 'Structure model' '_database_2.pdbx_DOI' 5 3 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6YMM _pdbx_database_status.recvd_initial_deposition_date 2020-04-08 _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.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # 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 48 _citation.language ? _citation.page_first 7545 _citation.page_last 7556 _citation.title 'Crystal structure and ligand-induced folding of the SAM/SAH riboswitch.' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkaa493 _citation.pdbx_database_id_PubMed 32520325 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huang, L.' 1 ? primary 'Liao, T.W.' 2 ? primary 'Wang, J.' 3 ? primary 'Ha, T.' 4 ? primary 'Lilley, D.M.J.' 5 ? # 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 'Chains: A' 8389.874 2 ? ? ? ? 2 polymer syn 'Chains: B,D' 2895.791 2 ? ? ? ? 3 non-polymer syn S-ADENOSYLMETHIONINE 398.437 3 ? ? ? ? 4 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 5 water nat water 18.015 11 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no yes 'GGU(CBV)ACAACGGCUUCCUGGCGUGACC' GGUCACAACGGCUUCCUGGCGUGACC A,C ? 2 polyribonucleotide no no AUUGGAGCA AUUGGAGCA B,D ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 S-ADENOSYLMETHIONINE SAM 4 'SODIUM ION' NA 5 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 U n 1 4 CBV n 1 5 A n 1 6 C n 1 7 A n 1 8 A n 1 9 C n 1 10 G n 1 11 G n 1 12 C n 1 13 U n 1 14 U n 1 15 C n 1 16 C n 1 17 U n 1 18 G n 1 19 G n 1 20 C n 1 21 G n 1 22 U n 1 23 G n 1 24 A n 1 25 C n 1 26 C n 2 1 A n 2 2 U n 2 3 U n 2 4 G n 2 5 G n 2 6 A n 2 7 G n 2 8 C n 2 9 A n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 26 'Roseobacter sp.' ? 1907202 ? 2 1 sample 1 9 'Roseobacter sp.' ? 1907202 ? # 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 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 SAM non-polymer . S-ADENOSYLMETHIONINE ? 'C15 H22 N6 O5 S' 398.437 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 7 7 G G A . n A 1 2 G 2 8 8 G G A . n A 1 3 U 3 9 9 U U A . n A 1 4 CBV 4 10 10 CBV CBV A . n A 1 5 A 5 11 11 A A A . n A 1 6 C 6 12 12 C C A . n A 1 7 A 7 13 13 A A A . n A 1 8 A 8 14 14 A A A . n A 1 9 C 9 15 15 C C A . n A 1 10 G 10 16 16 G G A . n A 1 11 G 11 17 17 G G A . n A 1 12 C 12 18 18 C C A . n A 1 13 U 13 19 19 U U A . n A 1 14 U 14 20 20 U U A . n A 1 15 C 15 21 21 C C A . n A 1 16 C 16 22 22 C C A . n A 1 17 U 17 23 23 U U A . n A 1 18 G 18 24 24 G G A . n A 1 19 G 19 25 25 G G A . n A 1 20 C 20 26 26 C C A . n A 1 21 G 21 27 27 G G A . n A 1 22 U 22 28 28 U U A . n A 1 23 G 23 29 29 G G A . n A 1 24 A 24 30 30 A A A . n A 1 25 C 25 31 31 C C A . n A 1 26 C 26 32 32 C C A . n B 2 1 A 1 43 43 A A B . n B 2 2 U 2 44 44 U U B . n B 2 3 U 3 45 45 U U B . n B 2 4 G 4 46 46 G G B . n B 2 5 G 5 47 47 G G B . n B 2 6 A 6 48 48 A A B . n B 2 7 G 7 49 49 G G B . n B 2 8 C 8 50 50 C C B . n B 2 9 A 9 51 51 A A B . n C 1 1 G 1 7 7 G G C . n C 1 2 G 2 8 8 G G C . n C 1 3 U 3 9 9 U U C . n C 1 4 CBV 4 10 10 CBV CBV C . n C 1 5 A 5 11 11 A A C . n C 1 6 C 6 12 12 C C C . n C 1 7 A 7 13 13 A A C . n C 1 8 A 8 14 14 A A C . n C 1 9 C 9 15 15 C C C . n C 1 10 G 10 16 16 G G C . n C 1 11 G 11 17 17 G G C . n C 1 12 C 12 18 18 C C C . n C 1 13 U 13 19 19 U U C . n C 1 14 U 14 20 20 U U C . n C 1 15 C 15 21 21 C C C . n C 1 16 C 16 22 22 C C C . n C 1 17 U 17 23 23 U U C . n C 1 18 G 18 24 24 G G C . n C 1 19 G 19 25 25 G G C . n C 1 20 C 20 26 26 C C C . n C 1 21 G 21 27 27 G G C . n C 1 22 U 22 28 28 U U C . n C 1 23 G 23 29 29 G G C . n C 1 24 A 24 30 30 A A C . n C 1 25 C 25 31 31 C C C . n C 1 26 C 26 32 32 C C C . n D 2 1 A 1 43 43 A A D . n D 2 2 U 2 44 44 U U D . n D 2 3 U 3 45 45 U U D . n D 2 4 G 4 46 46 G G D . n D 2 5 G 5 47 47 G G D . n D 2 6 A 6 48 48 A A D . n D 2 7 G 7 49 49 G G D . n D 2 8 C 8 50 50 C C D . n D 2 9 A 9 51 51 A A D . 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 E 3 SAM 1 101 101 SAM SAM A . F 4 NA 1 102 1 NA NA A . G 3 SAM 1 201 201 SAM SAM B . H 3 SAM 1 101 101 SAM SAM C . I 5 HOH 1 201 9 HOH HOH A . I 5 HOH 2 202 2 HOH HOH A . I 5 HOH 3 203 3 HOH HOH A . I 5 HOH 4 204 4 HOH HOH A . I 5 HOH 5 205 8 HOH HOH A . I 5 HOH 6 206 11 HOH HOH A . I 5 HOH 7 207 1 HOH HOH A . J 5 HOH 1 301 10 HOH HOH B . J 5 HOH 2 302 7 HOH HOH B . J 5 HOH 3 303 6 HOH HOH B . J 5 HOH 4 304 5 HOH HOH B . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 N 1 A SAM 101 ? N ? E SAM 1 N 2 1 N 1 A SAM 101 ? CA ? E SAM 1 CA 3 1 N 1 A SAM 101 ? C ? E SAM 1 C 4 1 N 1 A SAM 101 ? O ? E SAM 1 O 5 1 N 1 A SAM 101 ? OXT ? E SAM 1 OXT 6 1 N 1 B SAM 201 ? N ? G SAM 1 N 7 1 N 1 B SAM 201 ? CA ? G SAM 1 CA 8 1 N 1 B SAM 201 ? C ? G SAM 1 C 9 1 N 1 B SAM 201 ? O ? G SAM 1 O 10 1 N 1 B SAM 201 ? OXT ? G SAM 1 OXT 11 1 N 1 C SAM 101 ? N ? H SAM 1 N 12 1 N 1 C SAM 101 ? CA ? H SAM 1 CA 13 1 N 1 C SAM 101 ? C ? H SAM 1 C 14 1 N 1 C SAM 101 ? O ? H SAM 1 O 15 1 N 1 C SAM 101 ? OXT ? H SAM 1 OXT # 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 ? ? ? 1.17.1_3660 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.17.1_3660 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 120.000 _cell.angle_gamma_esd ? _cell.entry_id 6YMM _cell.details ? _cell.formula_units_Z ? _cell.length_a 88.170 _cell.length_a_esd ? _cell.length_b 88.170 _cell.length_b_esd ? _cell.length_c 76.080 _cell.length_c_esd ? _cell.volume 512203.825 _cell.volume_esd ? _cell.Z_PDB 12 _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 ? # _symmetry.entry_id 6YMM _symmetry.cell_setting ? _symmetry.Int_Tables_number 149 _symmetry.space_group_name_Hall 'P 3 2' _symmetry.space_group_name_H-M 'P 3 1 2' _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 6YMM _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 3.72 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 66.9 _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 6.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.01 M Magnesium Sulfate, 0.05 M Sodium Cacodylate pH 6.0, 1.8 M Lithium Sulfate monohydrate' _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.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER2 XE 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-07-21 _diffrn_detector.pdbx_frequency ? # _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 0.9198 _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 I04' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9198 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline I04 _diffrn_source.pdbx_synchrotron_site Diamond # _reflns.B_iso_Wilson_estimate 61.11 _reflns.entry_id 6YMM _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.20 _reflns.d_resolution_low 76.08 _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 32912 _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 99.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 14.2 _reflns.pdbx_Rmerge_I_obs 0.081 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 14.2 _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 0.022 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.97 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.20 _reflns_shell.d_res_low 2.24 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.4 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 801 _reflns_shell.percent_possible_all 95.7 _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 1.5 _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 9.3 _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 0.52 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.696 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? # _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 78.92 _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 6YMM _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 2.20 _refine.ls_d_res_low 38.18 _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 32912 _refine.ls_number_reflns_R_free 1688 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 97.98 _refine.ls_percent_reflns_R_free 5.13 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1939 _refine.ls_R_factor_R_free 0.2211 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1923 _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 ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.33 _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 SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _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 34.4545 _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 0.4099 _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 2.20 _refine_hist.d_res_low 38.18 _refine_hist.number_atoms_solvent 11 _refine_hist.number_atoms_total 1562 _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 1484 _refine_hist.pdbx_number_atoms_ligand 67 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0076 ? 1728 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.6395 ? 2681 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.1223 ? 356 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0101 ? 73 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 17.0192 ? 857 ? 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 _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.20 2.26 . . 115 2402 91.33 . . . 0.3824 . 0.4352 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.26 2.34 . . 106 2568 95.50 . . . 0.4405 . 0.4071 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.34 2.42 . . 176 2518 96.32 . . . 0.4574 . 0.3764 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.42 2.52 . . 140 2571 96.75 . . . 0.3584 . 0.3677 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.52 2.63 . . 127 2633 98.05 . . . 0.3957 . 0.3469 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.63 2.77 . . 135 2620 98.96 . . . 0.4144 . 0.3208 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.77 2.95 . . 121 2669 99.32 . . . 0.3450 . 0.3047 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.95 3.17 . . 142 2647 99.79 . . . 0.2556 . 0.2298 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.17 3.49 . . 164 2632 99.96 . . . 0.2149 . 0.1840 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.49 4.00 . . 157 2666 99.93 . . . 0.2225 . 0.1694 . . . . . . . . . . . 'X-RAY DIFFRACTION' 4.00 5.03 . . 135 2647 100.00 . . . 0.1736 . 0.1404 . . . . . . . . . . . 'X-RAY DIFFRACTION' 5.03 38.18 . . 170 2651 99.79 . . . 0.1413 . 0.1290 . . . . . . . . . . . # _struct.entry_id 6YMM _struct.title 'Crystal structure of the SAM-SAH riboswitch with SAM from space group P312' _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 6YMM _struct_keywords.text 'Pseudoknot; SAM; Riboswitch, 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 1 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 3 ? H N N 3 ? I N N 5 ? J N N 5 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 6YMM 6YMM ? 1 ? 1 2 PDB 6YMM 6YMM ? 2 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 6YMM A 1 ? 26 ? 6YMM 7 ? 32 ? 7 32 2 2 6YMM B 1 ? 9 ? 6YMM 43 ? 51 ? 43 51 3 1 6YMM C 1 ? 26 ? 6YMM 7 ? 32 ? 7 32 4 2 6YMM D 1 ? 9 ? 6YMM 43 ? 51 ? 43 51 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F,G,I,J 2 1 C,D,H # _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 U 3 "O3'" ? ? ? 1_555 A CBV 4 P ? ? A U 9 A CBV 10 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale2 covale one ? A CBV 4 "O3'" ? ? ? 1_555 A A 5 P ? ? A CBV 10 A A 11 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale3 covale both ? C U 3 "O3'" ? ? ? 1_555 C CBV 4 P ? ? C U 9 C CBV 10 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale4 covale one ? C CBV 4 "O3'" ? ? ? 1_555 C A 5 P ? ? C CBV 10 C A 11 1_555 ? ? ? ? ? ? ? 1.612 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 26 N3 ? ? A G 7 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 26 O2 ? ? A G 7 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 26 N4 ? ? A G 7 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 25 N3 ? ? A G 8 A C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 25 O2 ? ? A G 8 A C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 25 N4 ? ? A G 8 A C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 3 N3 ? ? ? 1_555 A A 24 N1 ? ? A U 9 A A 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 3 O4 ? ? ? 1_555 A A 24 N6 ? ? A U 9 A A 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A CBV 4 N3 ? ? ? 1_555 A G 23 N1 ? ? A CBV 10 A G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A CBV 4 N4 ? ? ? 1_555 A G 23 O6 ? ? A CBV 10 A G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A CBV 4 O2 ? ? ? 1_555 A G 23 N2 ? ? A CBV 10 A G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 22 N3 ? ? A A 11 A U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 22 O4 ? ? A A 11 A U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 21 N1 ? ? A C 12 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 21 O6 ? ? A C 12 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 21 N2 ? ? A C 12 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 7 N3 ? ? ? 1_555 A C 20 N4 ? ? A A 13 A C 26 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog18 hydrog ? ? A A 8 N6 ? ? ? 1_555 A G 19 N3 ? ? A A 14 A G 25 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog19 hydrog ? ? A A 8 N7 ? ? ? 1_555 A G 19 N2 ? ? A A 14 A G 25 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog20 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 18 N1 ? ? A C 15 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 18 O6 ? ? A C 15 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 18 N2 ? ? A C 15 A G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 O6 ? ? ? 1_555 A C 15 N4 ? ? A G 16 A C 21 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog24 hydrog ? ? A G 10 N1 ? ? ? 1_555 B G 5 O6 ? ? A G 16 B G 47 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A G 10 N2 ? ? ? 1_555 B G 5 N7 ? ? A G 16 B G 47 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 17 B C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 17 B C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 17 B C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 18 B G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 18 B G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 18 B G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 13 N3 ? ? ? 1_555 B A 6 N1 ? ? A U 19 B A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A U 13 O4 ? ? ? 1_555 B A 6 N6 ? ? A U 19 B A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 15 N3 ? ? ? 1_555 B G 5 N1 ? ? A C 21 B G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 15 N4 ? ? ? 1_555 B G 5 O6 ? ? A C 21 B G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 15 O2 ? ? ? 1_555 B G 5 N2 ? ? A C 21 B G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 16 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 16 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 16 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 18 N2 ? ? ? 1_555 B U 2 O2 ? ? A G 24 B U 44 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog41 hydrog ? ? C G 1 N1 ? ? ? 1_555 C C 26 N3 ? ? C G 7 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C G 1 N2 ? ? ? 1_555 C C 26 O2 ? ? C G 7 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C G 1 O6 ? ? ? 1_555 C C 26 N4 ? ? C G 7 C C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C G 2 N1 ? ? ? 1_555 C C 25 N3 ? ? C G 8 C C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C G 2 N2 ? ? ? 1_555 C C 25 O2 ? ? C G 8 C C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C G 2 O6 ? ? ? 1_555 C C 25 N4 ? ? C G 8 C C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C U 3 N3 ? ? ? 1_555 C A 24 N1 ? ? C U 9 C A 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C U 3 O4 ? ? ? 1_555 C A 24 N6 ? ? C U 9 C A 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C CBV 4 N3 ? ? ? 1_555 C G 23 N1 ? ? C CBV 10 C G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C CBV 4 N4 ? ? ? 1_555 C G 23 O6 ? ? C CBV 10 C G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C CBV 4 O2 ? ? ? 1_555 C G 23 N2 ? ? C CBV 10 C G 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C A 5 N1 ? ? ? 1_555 C U 22 N3 ? ? C A 11 C U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C A 5 N6 ? ? ? 1_555 C U 22 O4 ? ? C A 11 C U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C C 6 N3 ? ? ? 1_555 C G 21 N1 ? ? C C 12 C G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C C 6 N4 ? ? ? 1_555 C G 21 O6 ? ? C C 12 C G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C C 6 O2 ? ? ? 1_555 C G 21 N2 ? ? C C 12 C G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C A 7 N3 ? ? ? 1_555 C C 20 N4 ? ? C A 13 C C 26 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog58 hydrog ? ? C A 8 N6 ? ? ? 1_555 C G 19 N3 ? ? C A 14 C G 25 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog59 hydrog ? ? C A 8 N7 ? ? ? 1_555 C G 19 N2 ? ? C A 14 C G 25 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog60 hydrog ? ? C A 8 N1 ? ? ? 1_555 D A 1 N6 ? ? C A 14 D A 43 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog61 hydrog ? ? C A 8 N6 ? ? ? 1_555 D A 1 N1 ? ? C A 14 D A 43 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog62 hydrog ? ? C C 9 N3 ? ? ? 1_555 C G 18 N1 ? ? C C 15 C G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C C 9 N4 ? ? ? 1_555 C G 18 O6 ? ? C C 15 C G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C C 9 O2 ? ? ? 1_555 C G 18 N2 ? ? C C 15 C G 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C G 10 O6 ? ? ? 1_555 C C 15 N4 ? ? C G 16 C C 21 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog66 hydrog ? ? C G 10 N1 ? ? ? 1_555 D G 5 O6 ? ? C G 16 D G 47 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog67 hydrog ? ? C G 10 N2 ? ? ? 1_555 D G 5 N7 ? ? C G 16 D G 47 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog68 hydrog ? ? C G 11 N1 ? ? ? 1_555 D C 8 N3 ? ? C G 17 D C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C G 11 N2 ? ? ? 1_555 D C 8 O2 ? ? C G 17 D C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? C G 11 O6 ? ? ? 1_555 D C 8 N4 ? ? C G 17 D C 50 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? C C 12 N3 ? ? ? 1_555 D G 7 N1 ? ? C C 18 D G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? C C 12 N4 ? ? ? 1_555 D G 7 O6 ? ? C C 18 D G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? C C 12 O2 ? ? ? 1_555 D G 7 N2 ? ? C C 18 D G 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? C U 13 N3 ? ? ? 1_555 D A 6 N1 ? ? C U 19 D A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? C U 13 O4 ? ? ? 1_555 D A 6 N6 ? ? C U 19 D A 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? C C 15 N3 ? ? ? 1_555 D G 5 N1 ? ? C C 21 D G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? C C 15 N4 ? ? ? 1_555 D G 5 O6 ? ? C C 21 D G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? C C 15 O2 ? ? ? 1_555 D G 5 N2 ? ? C C 21 D G 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? C C 16 N3 ? ? ? 1_555 D G 4 N1 ? ? C C 22 D G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? C C 16 N4 ? ? ? 1_555 D G 4 O6 ? ? C C 22 D G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? C C 16 O2 ? ? ? 1_555 D G 4 N2 ? ? C C 22 D G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? C G 18 N2 ? ? ? 1_555 D A 1 N1 ? ? C G 24 D A 43 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog83 hydrog ? ? C G 18 N2 ? ? ? 1_555 D U 2 O2 ? ? C G 24 D U 44 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A SAM 101 ? 7 'binding site for residue SAM A 101' AC2 Software B SAM 201 ? 8 'binding site for residue SAM B 201' AC3 Software C SAM 101 ? 8 'binding site for residue SAM C 101' AC4 Software C CBV 10 ? 5 'binding site for Di-nucleotide CBV C 10 and A C 11' # 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 7 C A 9 ? C A 15 . ? 1_555 ? 2 AC1 7 G A 10 ? G A 16 . ? 1_555 ? 3 AC1 7 U A 17 ? U A 23 . ? 1_555 ? 4 AC1 7 G A 18 ? G A 24 . ? 1_555 ? 5 AC1 7 U B 2 ? U B 44 . ? 1_555 ? 6 AC1 7 U B 3 ? U B 45 . ? 1_555 ? 7 AC1 7 G B 4 ? G B 46 . ? 1_555 ? 8 AC2 8 A A 8 ? A A 14 . ? 1_555 ? 9 AC2 8 G A 18 ? G A 24 . ? 1_555 ? 10 AC2 8 G A 19 ? G A 25 . ? 1_555 ? 11 AC2 8 C A 20 ? C A 26 . ? 1_555 ? 12 AC2 8 U B 2 ? U B 44 . ? 1_555 ? 13 AC2 8 HOH J . ? HOH B 301 . ? 1_555 ? 14 AC2 8 C C 16 ? C C 22 . ? 2_545 ? 15 AC2 8 U C 17 ? U C 23 . ? 2_545 ? 16 AC3 8 A B 1 ? A B 43 . ? 3_655 ? 17 AC3 8 C C 9 ? C C 15 . ? 1_555 ? 18 AC3 8 G C 10 ? G C 16 . ? 1_555 ? 19 AC3 8 U C 17 ? U C 23 . ? 1_555 ? 20 AC3 8 G C 18 ? G C 24 . ? 1_555 ? 21 AC3 8 U D 2 ? U D 44 . ? 1_555 ? 22 AC3 8 U D 3 ? U D 45 . ? 1_555 ? 23 AC3 8 G D 4 ? G D 46 . ? 1_555 ? 24 AC4 5 U C 3 ? U C 9 . ? 1_555 ? 25 AC4 5 C C 6 ? C C 12 . ? 1_555 ? 26 AC4 5 U C 22 ? U C 28 . ? 1_555 ? 27 AC4 5 G C 23 ? G C 29 . ? 1_555 ? 28 AC4 5 A C 24 ? A C 30 . ? 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 N3 A G 24 ? ? H2 B SAM 201 ? ? 1.57 2 1 "O2'" B SAM 201 ? ? O B HOH 301 ? ? 2.08 # 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 C2 A C 12 ? ? N3 A C 12 ? ? C4 A C 12 ? ? 123.17 119.90 3.27 0.50 N 2 1 C2 A G 24 ? ? N3 A G 24 ? ? C4 A G 24 ? ? 115.64 111.90 3.74 0.50 N 3 1 C5 A G 24 ? ? C6 A G 24 ? ? N1 A G 24 ? ? 114.57 111.50 3.07 0.50 N 4 1 "C3'" B A 43 ? ? "O3'" B A 43 ? ? P B U 44 ? ? 127.53 119.70 7.83 1.20 Y 5 1 N3 B U 44 ? ? C4 B U 44 ? ? C5 B U 44 ? ? 118.44 114.60 3.84 0.60 N 6 1 "O3'" C CBV 10 ? ? P C A 11 ? ? OP2 C A 11 ? ? 84.46 105.20 -20.74 2.20 Y 7 1 "O3'" C CBV 10 ? ? P C A 11 ? ? OP1 C A 11 ? ? 81.32 105.20 -23.88 2.20 Y 8 1 OP1 C A 11 ? ? P C A 11 ? ? OP2 C A 11 ? ? 130.20 119.60 10.60 1.50 N # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 304 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id J _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y,x-y,z 3 -x+y,-x,z 4 -y,-x,-z 5 -x+y,y,-z 6 x,x-y,-z # 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 23.1870454325 -11.1025140737 26.1683361559 0.653681057136 ? -0.0150697905333 ? 0.104288967356 ? 0.693602185426 ? -0.0505213639136 ? 0.590091110135 ? 5.39604668011 ? 4.0233429995 ? 3.37071600585 ? 6.32173626566 ? -0.890538212719 ? 5.87801855942 ? -0.660600903473 ? 0.637729361803 ? -1.1266042779 ? -0.106760345527 ? 0.312547471305 ? -0.547768352614 ? 0.117053685336 ? 0.501346857048 ? 0.298517044511 ? 2 'X-RAY DIFFRACTION' ? refined 3.51946956502 -14.3944300512 24.8616472359 0.645942354563 ? -0.0332189115193 ? -0.0114173116392 ? 0.633069229274 ? -0.0504077167708 ? 0.500635061929 ? 5.13933956057 ? 0.790347833401 ? -0.941803736053 ? 1.27903084366 ? -0.185209509374 ? 0.815118190753 ? 0.0407135039233 ? 0.108870044804 ? 0.0552266128765 ? -0.113100363875 ? 0.0565487669614 ? 0.00658991256924 ? -0.119199846192 ? 0.0241220342388 ? -0.131016742698 ? 3 'X-RAY DIFFRACTION' ? refined 23.7756047013 -5.62808675582 20.5292256215 0.667511898637 ? 0.00306797412012 ? 0.144061082629 ? 0.798991654934 ? -0.10771903214 ? 0.661810684436 ? 8.48590494238 ? 3.99650290188 ? 4.78870840973 ? 6.03734674582 ? 1.59898229778 ? 4.05516333377 ? -0.350775723321 ? -0.39584883528 ? -0.0516253889525 ? -0.126580795896 ? 0.268155449982 ? -0.550069743536 ? 0.118879238489 ? 0.278802203221 ? 0.00638492489172 ? 4 'X-RAY DIFFRACTION' ? refined -2.92328997352 -22.642462791 28.2094719207 0.599436846414 ? -0.0275382468446 ? -0.0622761498968 ? 0.697909994508 ? -0.0356984754184 ? 0.555744253362 ? 2.68849009678 ? -1.91730272839 ? -0.727595872554 ? 1.37205447217 ? -0.0734885617838 ? 2.0013913357 ? 0.203602609824 ? 0.435683481839 ? -0.303113655416 ? -0.019411686631 ? -0.286127534519 ? 0.0628771983306 ? -0.00578622581382 ? -0.147874882887 ? 0.129416768728 ? 5 'X-RAY DIFFRACTION' ? refined 47.8961670681 -3.00050980885 11.5796008234 0.689734937278 ? -0.11327468503 ? -0.059091291662 ? 1.0341724746 ? 0.0181562270892 ? 0.979310759793 ? 7.83578679889 ? 4.20653864991 ? -6.02365508309 ? 4.82429692616 ? -2.41460289702 ? 4.87667625724 ? -0.707855425231 ? 0.323137945836 ? -0.718143224601 ? -0.639123822748 ? -0.193379894251 ? 0.460870651792 ? 0.510494427624 ? -0.243505366085 ? 0.83682834754 ? 6 'X-RAY DIFFRACTION' ? refined 49.1685823636 -2.84813881268 10.8928273264 0.795514544322 ? -0.165756555309 ? -0.0892736635473 ? 1.02421533073 ? 0.0395439253633 ? 0.803279033509 ? 4.54563150909 ? 2.70545049426 ? -3.10745225274 ? 7.61615814381 ? -0.675331443791 ? 2.05489733452 ? -0.785882210234 ? 0.721798645067 ? -0.257211599312 ? -0.670867129964 ? 0.471908341009 ? 0.977438926264 ? 0.64563880187 ? -0.628368520261 ? 0.390030448047 ? 7 'X-RAY DIFFRACTION' ? refined 58.1501590468 11.7568623081 10.8390224083 0.660272540473 ? 0.00401971354982 ? -0.0932216693695 ? 0.815651846166 ? 0.0458407895223 ? 0.5903814756 ? 2.25158549692 ? 3.41198131298 ? 0.759004428245 ? 9.28663784995 ? -1.60281120205 ? 4.14278543316 ? -0.372425375042 ? 0.877533476701 ? 0.273375577271 ? -0.529202097002 ? 0.366288569349 ? 0.97254800985 ? -0.486967022971 ? -0.685957700457 ? 0.0348659448078 ? # 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.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.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 7 through 12 ) ; 2 'X-RAY DIFFRACTION' 2 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 13 through 27 ) ; 3 'X-RAY DIFFRACTION' 3 ? ? ? ? ? ? ? ? ? ;chain 'A' and (resid 28 through 32 ) ; 4 'X-RAY DIFFRACTION' 4 ? ? ? ? ? ? ? ? ? ;chain 'B' and (resid 43 through 51 ) ; 5 'X-RAY DIFFRACTION' 5 ? ? ? ? ? ? ? ? ? ;chain 'C' and (resid 7 through 17 ) ; 6 'X-RAY DIFFRACTION' 6 ? ? ? ? ? ? ? ? ? ;chain 'C' and (resid 18 through 32 ) ; 7 'X-RAY DIFFRACTION' 7 ? ? ? ? ? ? ? ? ? ;chain 'D' and (resid 43 through 51 ) ; # _pdbx_entry_details.entry_id 6YMM _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # 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 NA NA NA N N 149 SAM N N N N 150 SAM CA C N S 151 SAM C C N N 152 SAM O O N N 153 SAM OXT O N N 154 SAM CB C N N 155 SAM CG C N N 156 SAM SD S N S 157 SAM CE C N N 158 SAM "C5'" C N N 159 SAM "C4'" C N S 160 SAM "O4'" O N N 161 SAM "C3'" C N S 162 SAM "O3'" O N N 163 SAM "C2'" C N R 164 SAM "O2'" O N N 165 SAM "C1'" C N R 166 SAM N9 N Y N 167 SAM C8 C Y N 168 SAM N7 N Y N 169 SAM C5 C Y N 170 SAM C6 C Y N 171 SAM N6 N N N 172 SAM N1 N Y N 173 SAM C2 C Y N 174 SAM N3 N Y N 175 SAM C4 C Y N 176 SAM HN1 H N N 177 SAM HN2 H N N 178 SAM HA H N N 179 SAM HB1 H N N 180 SAM HB2 H N N 181 SAM HG1 H N N 182 SAM HG2 H N N 183 SAM HE1 H N N 184 SAM HE2 H N N 185 SAM HE3 H N N 186 SAM "H5'1" H N N 187 SAM "H5'2" H N N 188 SAM "H4'" H N N 189 SAM "H3'" H N N 190 SAM "HO3'" H N N 191 SAM "H2'" H N N 192 SAM "HO2'" H N N 193 SAM "H1'" H N N 194 SAM H8 H N N 195 SAM HN61 H N N 196 SAM HN62 H N N 197 SAM H2 H N N 198 U OP3 O N N 199 U P P N N 200 U OP1 O N N 201 U OP2 O N N 202 U "O5'" O N N 203 U "C5'" C N N 204 U "C4'" C N R 205 U "O4'" O N N 206 U "C3'" C N S 207 U "O3'" O N N 208 U "C2'" C N R 209 U "O2'" O N N 210 U "C1'" C N R 211 U N1 N N N 212 U C2 C N N 213 U O2 O N N 214 U N3 N N N 215 U C4 C N N 216 U O4 O N N 217 U C5 C N N 218 U C6 C N N 219 U HOP3 H N N 220 U HOP2 H N N 221 U "H5'" H N N 222 U "H5''" H N N 223 U "H4'" H N N 224 U "H3'" H N N 225 U "HO3'" H N N 226 U "H2'" H N N 227 U "HO2'" H N N 228 U "H1'" H N N 229 U H3 H N N 230 U H5 H N N 231 U H6 H N N 232 # 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 U OP3 P sing N N 205 U OP3 HOP3 sing N N 206 U P OP1 doub N N 207 U P OP2 sing N N 208 U P "O5'" sing N N 209 U OP2 HOP2 sing N N 210 U "O5'" "C5'" sing N N 211 U "C5'" "C4'" sing N N 212 U "C5'" "H5'" sing N N 213 U "C5'" "H5''" sing N N 214 U "C4'" "O4'" sing N N 215 U "C4'" "C3'" sing N N 216 U "C4'" "H4'" sing N N 217 U "O4'" "C1'" sing N N 218 U "C3'" "O3'" sing N N 219 U "C3'" "C2'" sing N N 220 U "C3'" "H3'" sing N N 221 U "O3'" "HO3'" sing N N 222 U "C2'" "O2'" sing N N 223 U "C2'" "C1'" sing N N 224 U "C2'" "H2'" sing N N 225 U "O2'" "HO2'" sing N N 226 U "C1'" N1 sing N N 227 U "C1'" "H1'" sing N N 228 U N1 C2 sing N N 229 U N1 C6 sing N N 230 U C2 O2 doub N N 231 U C2 N3 sing N N 232 U N3 C4 sing N N 233 U N3 H3 sing N N 234 U C4 O4 doub N N 235 U C4 C5 sing N N 236 U C5 C6 doub N N 237 U C5 H5 sing N N 238 U C6 H6 sing N N 239 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6YMM 'double helix' 6YMM 'a-form double helix' 6YMM 'hairpin loop' 6YMM '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 11 1_555 B C 8 1_555 -0.034 -0.126 0.447 7.599 -5.218 -0.810 1 A_G17:C50_B A 17 ? B 50 ? 19 1 1 A C 12 1_555 B G 7 1_555 0.476 -0.223 0.124 2.330 -24.741 5.553 2 A_C18:G49_B A 18 ? B 49 ? 19 1 1 A U 13 1_555 B A 6 1_555 -0.086 -0.141 0.012 2.220 -9.979 -3.287 3 A_U19:A48_B A 19 ? B 48 ? 20 1 1 A C 15 1_555 B G 5 1_555 0.043 -0.165 -0.395 11.189 -6.064 -1.567 4 A_C21:G47_B A 21 ? B 47 ? 19 1 1 A C 16 1_555 B G 4 1_555 -0.007 -0.145 -0.034 -2.685 -2.768 1.117 5 A_C22:G46_B A 22 ? B 46 ? 19 1 1 A G 18 1_555 A C 9 1_555 0.001 -0.175 -0.548 0.315 8.472 2.374 6 A_G24:C15_A A 24 ? A 15 ? 19 1 1 A G 19 1_555 A A 8 1_555 6.492 -4.288 0.945 31.059 16.745 3.493 7 A_G25:A14_A A 25 ? A 14 ? 11 9 1 A C 20 1_555 A A 7 1_555 -6.978 -4.806 -0.226 -5.338 -25.440 1.727 8 A_C26:A13_A A 26 ? A 13 ? ? 6 1 A G 21 1_555 A C 6 1_555 -0.159 -0.156 -0.059 -15.178 -18.630 -0.908 9 A_G27:C12_A A 27 ? A 12 ? 19 1 1 A U 22 1_555 A A 5 1_555 0.021 -0.140 0.294 -10.054 -12.267 2.281 10 A_U28:A11_A A 28 ? A 11 ? 20 1 1 A G 23 1_555 A CBV 4 1_555 -0.145 -0.159 0.301 -1.758 -9.347 1.517 11 A_G29:CBV10_A A 29 ? A 10 ? 19 1 1 A A 24 1_555 A U 3 1_555 -0.009 -0.103 0.099 5.330 -8.535 0.927 12 A_A30:U9_A A 30 ? A 9 ? 20 1 1 A C 25 1_555 A G 2 1_555 0.038 -0.305 -0.061 12.200 -12.781 -3.848 13 A_C31:G8_A A 31 ? A 8 ? 19 1 1 A C 26 1_555 A G 1 1_555 0.325 -0.172 0.049 8.783 -5.653 3.466 14 A_C32:G7_A A 32 ? A 7 ? 19 1 1 C G 1 1_555 C C 26 1_555 0.042 -0.203 0.245 -1.945 -5.038 0.700 15 C_G7:C32_C C 7 ? C 32 ? 19 1 1 C G 2 1_555 C C 25 1_555 -0.095 -0.130 0.028 -0.932 -12.777 1.737 16 C_G8:C31_C C 8 ? C 31 ? 19 1 1 C U 3 1_555 C A 24 1_555 0.533 -0.304 0.089 -4.053 -7.652 7.491 17 C_U9:A30_C C 9 ? C 30 ? 20 1 1 C CBV 4 1_555 C G 23 1_555 -0.142 -0.099 -0.001 2.104 -7.715 -1.940 18 C_CBV10:G29_C C 10 ? C 29 ? 19 1 1 C A 5 1_555 C U 22 1_555 -0.116 -0.020 -0.595 -1.367 -3.534 0.921 19 C_A11:U28_C C 11 ? C 28 ? 20 1 1 C C 6 1_555 C G 21 1_555 0.168 -0.313 -0.131 8.517 -14.632 1.236 20 C_C12:G27_C C 12 ? C 27 ? 19 1 1 C A 7 1_555 C C 20 1_555 7.070 -5.090 -0.260 4.810 -20.668 0.786 21 C_A13:C26_C C 13 ? C 26 ? ? 6 1 C A 8 1_555 D A 1 1_555 1.663 1.556 0.263 27.843 37.679 -166.202 22 C_A14:A43_D C 14 ? D 43 ? 1 2 1 C C 9 1_555 C G 18 1_555 0.064 -0.115 -0.325 1.389 5.594 0.295 23 C_C15:G24_C C 15 ? C 24 ? 19 1 1 D G 4 1_555 C C 16 1_555 -0.142 -0.168 -0.022 2.395 -10.270 1.897 24 D_G46:C22_C D 46 ? C 22 ? 19 1 1 D G 5 1_555 C C 15 1_555 -0.180 -0.116 -0.643 -19.109 -9.560 1.388 25 D_G47:C21_C D 47 ? C 21 ? 19 1 1 D A 6 1_555 C U 13 1_555 0.290 -0.049 -0.165 -10.065 -0.580 -6.744 26 D_A48:U19_C D 48 ? C 19 ? 20 1 1 D G 7 1_555 C C 12 1_555 -0.229 -0.194 0.216 -4.214 -20.089 2.492 27 D_G49:C18_C D 49 ? C 18 ? 19 1 1 D C 8 1_555 C G 11 1_555 0.087 -0.262 0.674 -9.098 -20.483 -3.543 28 D_C50:G17_C D 50 ? C 17 ? 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 G 11 1_555 B C 8 1_555 A C 12 1_555 B G 7 1_555 0.649 -1.477 3.425 0.936 14.532 34.570 -4.147 -0.893 2.632 23.220 -1.495 37.426 1 AA_G17C18:G49C50_BB A 17 ? B 50 ? A 18 ? B 49 ? 1 A C 12 1_555 B G 7 1_555 A U 13 1_555 B A 6 1_555 -1.279 -1.118 3.215 -0.079 21.871 29.921 -4.380 2.011 1.977 36.812 0.133 36.914 2 AA_C18U19:A48G49_BB A 18 ? B 49 ? A 19 ? B 48 ? 1 A U 13 1_555 B A 6 1_555 A C 15 1_555 B G 5 1_555 -1.884 -0.671 2.971 1.999 9.810 54.510 -1.230 2.131 2.756 10.610 -2.162 55.352 3 AA_U19C21:G47A48_BB A 19 ? B 48 ? A 21 ? B 47 ? 1 A C 15 1_555 B G 5 1_555 A C 16 1_555 B G 4 1_555 0.123 -2.590 3.570 -1.356 6.975 34.023 -5.419 -0.416 2.990 11.761 2.287 34.736 4 AA_C21C22:G46G47_BB A 21 ? B 47 ? A 22 ? B 46 ? 1 A C 16 1_555 B G 4 1_555 A G 18 1_555 A C 9 1_555 1.622 -2.787 6.446 7.015 6.067 63.119 -3.158 -0.937 6.313 5.763 -6.663 63.727 5 AA_C22G24:C15G46_AB A 22 ? B 46 ? A 24 ? A 15 ? 1 A G 18 1_555 A C 9 1_555 A G 19 1_555 A A 8 1_555 -0.315 -0.626 2.679 -3.624 15.962 54.873 -1.358 0.170 2.441 16.905 3.838 57.081 6 AA_G24G25:A14C15_AA A 24 ? A 15 ? A 25 ? A 14 ? 1 A G 19 1_555 A A 8 1_555 A C 20 1_555 A A 7 1_555 -0.412 -1.933 3.946 4.613 -0.706 -12.004 9.588 4.478 3.721 3.222 21.045 -12.876 7 AA_G25C26:A13A14_AA A 25 ? A 14 ? A 26 ? A 13 ? 1 A C 20 1_555 A A 7 1_555 A G 21 1_555 A C 6 1_555 0.564 -0.456 4.001 -2.946 5.941 64.605 -0.727 -0.675 3.924 5.543 2.748 64.907 8 AA_C26G27:C12A13_AA A 26 ? A 13 ? A 27 ? A 12 ? 1 A G 21 1_555 A C 6 1_555 A U 22 1_555 A A 5 1_555 0.224 -1.071 3.208 -0.894 1.683 33.442 -2.127 -0.531 3.145 2.922 1.552 33.495 9 AA_G27U28:A11C12_AA A 27 ? A 12 ? A 28 ? A 11 ? 1 A U 22 1_555 A A 5 1_555 A G 23 1_555 A CBV 4 1_555 0.255 -1.945 2.981 2.432 0.488 25.707 -4.476 0.045 2.955 1.094 -5.450 25.824 10 AA_U28G29:CBV10A11_AA A 28 ? A 11 ? A 29 ? A 10 ? 1 A G 23 1_555 A CBV 4 1_555 A A 24 1_555 A U 3 1_555 -0.357 -1.765 3.115 -0.301 0.758 31.553 -3.377 0.603 3.076 1.393 0.553 31.563 11 AA_G29A30:U9CBV10_AA A 29 ? A 10 ? A 30 ? A 9 ? 1 A A 24 1_555 A U 3 1_555 A C 25 1_555 A G 2 1_555 -0.637 -1.553 3.158 -0.751 1.251 29.078 -3.351 1.111 3.105 2.489 1.495 29.114 12 AA_A30C31:G8U9_AA A 30 ? A 9 ? A 31 ? A 8 ? 1 A C 25 1_555 A G 2 1_555 A C 26 1_555 A G 1 1_555 0.471 -1.928 3.385 -2.841 4.303 33.993 -3.931 -1.238 3.077 7.307 4.824 34.370 13 AA_C31C32:G7G8_AA A 31 ? A 8 ? A 32 ? A 7 ? 1 A C 26 1_555 A G 1 1_555 C G 1 1_555 C C 26 1_555 0.057 -3.861 3.447 -1.830 7.012 -7.535 2.967 -4.447 5.084 -42.520 -11.096 -10.451 14 AC_C32G7:C32G7_CA A 32 ? A 7 ? C 7 ? C 32 ? 1 C G 1 1_555 C C 26 1_555 C G 2 1_555 C C 25 1_555 -0.089 -1.801 3.295 0.151 0.596 32.166 -3.357 0.188 3.261 1.076 -0.273 32.172 15 CC_G7G8:C31C32_CC C 7 ? C 32 ? C 8 ? C 31 ? 1 C G 2 1_555 C C 25 1_555 C U 3 1_555 C A 24 1_555 0.340 -1.544 3.375 -0.162 6.657 33.604 -3.658 -0.603 3.021 11.376 0.277 34.239 16 CC_G8U9:A30C31_CC C 8 ? C 31 ? C 9 ? C 30 ? 1 C U 3 1_555 C A 24 1_555 C CBV 4 1_555 C G 23 1_555 -0.668 -1.630 3.043 1.244 4.748 28.653 -4.173 1.574 2.712 9.506 -2.491 29.061 17 CC_U9CBV10:G29A30_CC C 9 ? C 30 ? C 10 ? C 29 ? 1 C CBV 4 1_555 C G 23 1_555 C A 5 1_555 C U 22 1_555 0.122 -1.491 3.434 5.207 8.908 27.613 -4.812 0.858 2.803 17.890 -10.458 29.443 18 CC_CBV10A11:U28G29_CC C 10 ? C 29 ? C 11 ? C 28 ? 1 C A 5 1_555 C U 22 1_555 C C 6 1_555 C G 21 1_555 1.104 -2.351 3.024 -0.808 4.024 27.535 -5.725 -2.463 2.627 8.395 1.686 27.833 19 CC_A11C12:G27U28_CC C 11 ? C 28 ? C 12 ? C 27 ? 1 C C 6 1_555 C G 21 1_555 C A 7 1_555 C C 20 1_555 -0.533 -0.576 3.669 4.189 6.466 64.215 -0.842 0.695 3.565 6.060 -3.926 64.626 20 CC_C12A13:C26G27_CC C 12 ? C 27 ? C 13 ? C 26 ? 1 C A 7 1_555 C C 20 1_555 C A 8 1_555 D A 1 1_555 -4.985 -1.977 4.756 -8.000 -9.269 67.613 -1.212 3.956 5.445 -8.260 7.129 68.583 21 CC_A13A14:A43C26_DC C 13 ? C 26 ? C 14 ? D 43 ? 1 C A 8 1_555 D A 1 1_555 C C 9 1_555 C G 18 1_555 3.904 -2.078 2.268 22.973 15.587 -27.824 2.268 7.064 0.193 -25.707 37.889 -39.111 22 CC_A14C15:G24A43_CD C 14 ? D 43 ? C 15 ? C 24 ? 1 C C 9 1_555 C G 18 1_555 D G 4 1_555 C C 16 1_555 -0.950 -2.613 6.560 -6.959 7.192 63.582 -3.065 0.304 6.327 6.781 6.562 64.283 23 CD_C15G46:C22G24_CC C 15 ? C 24 ? D 46 ? C 22 ? 1 D G 4 1_555 C C 16 1_555 D G 5 1_555 C C 15 1_555 -0.197 -2.313 3.739 2.048 8.854 35.889 -4.910 0.602 3.086 14.092 -3.260 36.985 24 DD_G46G47:C21C22_CC D 46 ? C 22 ? D 47 ? C 21 ? 1 D G 5 1_555 C C 15 1_555 D A 6 1_555 C U 13 1_555 1.842 -0.500 2.960 -2.059 6.855 53.777 -0.920 -2.133 2.814 7.540 2.265 54.216 25 DD_G47A48:U19C21_CC D 47 ? C 21 ? D 48 ? C 19 ? 1 D A 6 1_555 C U 13 1_555 D G 7 1_555 C C 12 1_555 0.944 -1.637 3.152 0.054 14.906 27.267 -5.482 -1.756 2.009 29.031 -0.105 31.008 26 DD_A48G49:C18U19_CC D 48 ? C 19 ? D 49 ? C 18 ? 1 D G 7 1_555 C C 12 1_555 D C 8 1_555 C G 11 1_555 0.437 -1.664 3.244 1.259 1.816 36.477 -2.900 -0.527 3.173 2.898 -2.008 36.541 27 DD_G49C50:G17C18_CC D 49 ? C 18 ? D 50 ? C 17 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Cancer Research UK' 'United Kingdom' A18604 1 'Ministry of Education (MoE, China)' China ? 2 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id SAM _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id SAM _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 ? # _space_group.name_H-M_alt 'P 3 1 2' _space_group.name_Hall 'P 3 2' _space_group.IT_number 149 _space_group.crystal_system trigonal _space_group.id 1 # _atom_sites.entry_id 6YMM _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.fract_transf_matrix[1][1] 0.011342 _atom_sites.fract_transf_matrix[1][2] 0.006548 _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] 0.013096 _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] 0.013144 _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 BR ? ? 25.79822 9.11301 ? ? 1.35700 25.34896 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? 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. ; ? 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. ; ? 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. ; ? O1- ? ? 5.12366 3.84317 ? ? 3.49406 27.47979 ? ? 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. ; ? S ? ? 9.55732 6.39887 ? ? 1.23737 29.19336 ? ? 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_