data_5NDH # _entry.id 5NDH # _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 5NDH pdb_00005ndh 10.2210/pdb5ndh/pdb WWPDB D_1200003925 ? ? # 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 2017-05-31 2 'Structure model' 1 1 2017-07-05 3 'Structure model' 1 2 2017-08-30 4 'Structure model' 1 3 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' 'Database references' 2 3 'Structure model' 'Author supporting evidence' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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 3 'Structure model' pdbx_audit_support 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 'Structure model' pdbx_struct_conn_angle 7 4 '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.country' 2 2 'Structure model' '_citation.journal_volume' 3 2 'Structure model' '_citation.page_first' 4 2 'Structure model' '_citation.page_last' 5 3 'Structure model' '_pdbx_audit_support.funding_organization' 6 4 'Structure model' '_database_2.pdbx_DOI' 7 4 'Structure model' '_database_2.pdbx_database_accession' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.value' 11 4 'Structure model' '_struct_conn.conn_type_id' 12 4 'Structure model' '_struct_conn.id' 13 4 'Structure model' '_struct_conn.pdbx_dist_value' 14 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 15 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 16 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 17 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 18 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 19 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 20 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 21 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 22 4 'Structure model' '_struct_conn.ptnr1_symmetry' 23 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 24 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 25 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 26 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 27 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 28 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 29 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 30 4 'Structure model' '_struct_conn.ptnr2_symmetry' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5NDH _pdbx_database_status.recvd_initial_deposition_date 2017-03-08 _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.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 ? 'Wang, J.' 2 ? 'Lilley, D.M.J.' 3 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Cell Chem Biol' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2451-9456 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 24 _citation.language ? _citation.page_first 695 _citation.page_last 702.e2 _citation.title 'The Structure of the Guanidine-II Riboswitch.' _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.chembiol.2017.05.014 _citation.pdbx_database_id_PubMed 28529131 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huang, L.' 1 ? primary 'Wang, J.' 2 ? primary 'Lilley, D.M.J.' 3 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA (5'-R(*GP*(CBV)P*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*GP*C)-3') ; 5245.062 4 ? ? ? ? 2 non-polymer syn GUANIDINE 59.070 4 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 4 ? ? ? ? 4 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 5 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 6 water nat water 18.015 81 ? ? ? ? # _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 'G(CBV)GGGGACGACCCCGC' _entity_poly.pdbx_seq_one_letter_code_can GCGGGGACGACCCCGC _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 GUANIDINE GAI 3 'SODIUM ION' NA 4 'MAGNESIUM ION' MG 5 'SULFATE ION' SO4 6 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 CBV n 1 3 G n 1 4 G n 1 5 G n 1 6 G n 1 7 A n 1 8 C n 1 9 G n 1 10 A n 1 11 C n 1 12 C n 1 13 C n 1 14 C n 1 15 G n 1 16 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 16 _pdbx_entity_src_syn.organism_scientific 'Gloeobacter violaceus' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 33072 _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 GAI non-polymer . GUANIDINE ? 'C H5 N3' 59.070 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 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 1 G G A . n A 1 2 CBV 2 2 2 CBV CBV A . n A 1 3 G 3 3 3 G G A . n A 1 4 G 4 4 4 G G A . n A 1 5 G 5 5 5 G G A . n A 1 6 G 6 6 6 G G A . n A 1 7 A 7 7 7 A A A . n A 1 8 C 8 8 8 C C A . n A 1 9 G 9 9 9 G G A . n A 1 10 A 10 10 10 A A A . n A 1 11 C 11 11 11 C C A . n A 1 12 C 12 12 12 C C A . n A 1 13 C 13 13 13 C C A . n A 1 14 C 14 14 14 C C A . n A 1 15 G 15 15 15 G G A . n A 1 16 C 16 16 16 C C A . n B 1 1 G 1 1 1 G G B . n B 1 2 CBV 2 2 2 CBV CBV B . n B 1 3 G 3 3 3 G G B . n B 1 4 G 4 4 4 G G B . n B 1 5 G 5 5 5 G G B . n B 1 6 G 6 6 6 G G B . n B 1 7 A 7 7 7 A A B . n B 1 8 C 8 8 8 C C B . n B 1 9 G 9 9 9 G G B . n B 1 10 A 10 10 10 A A B . n B 1 11 C 11 11 11 C C B . n B 1 12 C 12 12 12 C C B . n B 1 13 C 13 13 13 C C B . n B 1 14 C 14 14 14 C C B . n B 1 15 G 15 15 15 G G B . n B 1 16 C 16 16 16 C C B . n C 1 1 G 1 1 1 G G C . n C 1 2 CBV 2 2 2 CBV CBV C . n C 1 3 G 3 3 3 G G C . n C 1 4 G 4 4 4 G G C . n C 1 5 G 5 5 5 G G C . n C 1 6 G 6 6 6 G G C . n C 1 7 A 7 7 7 A A C . n C 1 8 C 8 8 8 C C C . n C 1 9 G 9 9 9 G G C . n C 1 10 A 10 10 10 A A C . n C 1 11 C 11 11 11 C C C . n C 1 12 C 12 12 12 C C C . n C 1 13 C 13 13 13 C C C . n C 1 14 C 14 14 14 C C C . n C 1 15 G 15 15 15 G G C . n C 1 16 C 16 16 16 C C C . n D 1 1 G 1 1 1 G G D . n D 1 2 CBV 2 2 2 CBV CBV D . n D 1 3 G 3 3 3 G G D . n D 1 4 G 4 4 4 G G D . n D 1 5 G 5 5 5 G G D . n D 1 6 G 6 6 6 G G D . n D 1 7 A 7 7 7 A A D . n D 1 8 C 8 8 8 C C D . n D 1 9 G 9 9 9 G G D . n D 1 10 A 10 10 10 A A D . n D 1 11 C 11 11 11 C C D . n D 1 12 C 12 12 12 C C D . n D 1 13 C 13 13 13 C C D . n D 1 14 C 14 14 14 C C D . n D 1 15 G 15 15 15 G G D . n D 1 16 C 16 16 16 C C 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 2 GAI 1 101 1 GAI GAI A . F 3 NA 1 102 3 NA NA A . G 4 MG 1 103 1 MG MG A . H 2 GAI 1 101 2 GAI GAI B . I 3 NA 1 102 2 NA NA B . J 3 NA 1 103 4 NA NA B . K 2 GAI 1 101 4 GAI GAI C . L 3 NA 1 102 1 NA NA C . M 2 GAI 1 101 3 GAI GAI D . N 5 SO4 1 102 1 SO4 SO4 D . O 5 SO4 1 103 2 SO4 SO4 D . P 6 HOH 1 201 37 HOH HOH A . P 6 HOH 2 202 76 HOH HOH A . P 6 HOH 3 203 12 HOH HOH A . P 6 HOH 4 204 24 HOH HOH A . P 6 HOH 5 205 2 HOH HOH A . P 6 HOH 6 206 36 HOH HOH A . P 6 HOH 7 207 9 HOH HOH A . P 6 HOH 8 208 31 HOH HOH A . P 6 HOH 9 209 63 HOH HOH A . P 6 HOH 10 210 61 HOH HOH A . P 6 HOH 11 211 74 HOH HOH A . P 6 HOH 12 212 26 HOH HOH A . P 6 HOH 13 213 14 HOH HOH A . P 6 HOH 14 214 73 HOH HOH A . P 6 HOH 15 215 51 HOH HOH A . P 6 HOH 16 216 55 HOH HOH A . P 6 HOH 17 217 56 HOH HOH A . P 6 HOH 18 218 1 HOH HOH A . Q 6 HOH 1 201 10 HOH HOH B . Q 6 HOH 2 202 21 HOH HOH B . Q 6 HOH 3 203 42 HOH HOH B . Q 6 HOH 4 204 19 HOH HOH B . Q 6 HOH 5 205 52 HOH HOH B . Q 6 HOH 6 206 5 HOH HOH B . Q 6 HOH 7 207 11 HOH HOH B . Q 6 HOH 8 208 3 HOH HOH B . Q 6 HOH 9 209 17 HOH HOH B . Q 6 HOH 10 210 8 HOH HOH B . Q 6 HOH 11 211 39 HOH HOH B . Q 6 HOH 12 212 47 HOH HOH B . Q 6 HOH 13 213 81 HOH HOH B . Q 6 HOH 14 214 46 HOH HOH B . Q 6 HOH 15 215 53 HOH HOH B . Q 6 HOH 16 216 57 HOH HOH B . R 6 HOH 1 201 59 HOH HOH C . R 6 HOH 2 202 29 HOH HOH C . R 6 HOH 3 203 45 HOH HOH C . R 6 HOH 4 204 38 HOH HOH C . R 6 HOH 5 205 54 HOH HOH C . R 6 HOH 6 206 75 HOH HOH C . R 6 HOH 7 207 35 HOH HOH C . R 6 HOH 8 208 15 HOH HOH C . R 6 HOH 9 209 22 HOH HOH C . R 6 HOH 10 210 16 HOH HOH C . R 6 HOH 11 211 66 HOH HOH C . R 6 HOH 12 212 79 HOH HOH C . R 6 HOH 13 213 67 HOH HOH C . R 6 HOH 14 214 60 HOH HOH C . R 6 HOH 15 215 58 HOH HOH C . R 6 HOH 16 216 68 HOH HOH C . R 6 HOH 17 217 48 HOH HOH C . R 6 HOH 18 218 44 HOH HOH C . R 6 HOH 19 219 33 HOH HOH C . R 6 HOH 20 220 65 HOH HOH C . R 6 HOH 21 221 41 HOH HOH C . S 6 HOH 1 201 25 HOH HOH D . S 6 HOH 2 202 80 HOH HOH D . S 6 HOH 3 203 23 HOH HOH D . S 6 HOH 4 204 6 HOH HOH D . S 6 HOH 5 205 4 HOH HOH D . S 6 HOH 6 206 18 HOH HOH D . S 6 HOH 7 207 13 HOH HOH D . S 6 HOH 8 208 27 HOH HOH D . S 6 HOH 9 209 71 HOH HOH D . S 6 HOH 10 210 30 HOH HOH D . S 6 HOH 11 211 50 HOH HOH D . S 6 HOH 12 212 70 HOH HOH D . S 6 HOH 13 213 7 HOH HOH D . S 6 HOH 14 214 49 HOH HOH D . S 6 HOH 15 215 34 HOH HOH D . S 6 HOH 16 216 40 HOH HOH D . S 6 HOH 17 217 69 HOH HOH D . S 6 HOH 18 218 43 HOH HOH D . S 6 HOH 19 219 64 HOH HOH D . S 6 HOH 20 220 78 HOH HOH D . S 6 HOH 21 221 20 HOH HOH D . S 6 HOH 22 222 32 HOH HOH D . S 6 HOH 23 223 28 HOH HOH D . S 6 HOH 24 224 77 HOH HOH D . S 6 HOH 25 225 62 HOH HOH D . S 6 HOH 26 226 72 HOH HOH D . # 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 ? ? ? '(dev_2219: ???)' 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 4 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 5NDH _cell.details ? _cell.formula_units_Z ? _cell.length_a 48.727 _cell.length_a_esd ? _cell.length_b 57.825 _cell.length_b_esd ? _cell.length_c 100.862 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 16 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NDH _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 5NDH _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 3.39 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 63.68 _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, HANGING 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_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M-F' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2017-02-20 # _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 0.92011 _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 0.92011 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline I04 _diffrn_source.pdbx_synchrotron_site Diamond # _reflns.B_iso_Wilson_estimate 34.70 _reflns.entry_id 5NDH _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.81 _reflns.d_resolution_low 50.17 _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 49436 _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 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 6.3 _reflns.pdbx_Rmerge_I_obs 0.059 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 16.2 _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 0.026 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.998 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.81 _reflns_shell.d_res_low 1.84 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.1 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all 1275 _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all 98.6 _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 1.41 _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 6.4 _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 0.66 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.55 _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 ? _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 5NDH _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 1.810 _refine.ls_d_res_low 50.166 _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 49436 _refine.ls_number_reflns_R_free 2455 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.52 _refine.ls_percent_reflns_R_free 4.97 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2075 _refine.ls_R_factor_R_free 0.2222 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2066 _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.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 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 31.40 _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 0.30 _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.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1376 _refine_hist.pdbx_number_atoms_ligand 31 _refine_hist.number_atoms_solvent 81 _refine_hist.number_atoms_total 1488 _refine_hist.d_res_high 1.810 _refine_hist.d_res_low 50.166 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.005 ? 1556 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 2.055 ? 2424 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 10.451 ? 720 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.039 ? 312 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.006 ? 68 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _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_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' 1.8100 1.8448 . . 127 2379 90.00 . . . 0.3869 . 0.4185 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.8448 1.8824 . . 109 2533 95.00 . . . 0.4011 . 0.3989 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.8824 1.9234 . . 127 2571 96.00 . . . 0.4013 . 0.3807 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.9234 1.9681 . . 129 2622 98.00 . . . 0.3913 . 0.3739 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.9681 2.0173 . . 133 2597 99.00 . . . 0.3504 . 0.3656 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.0173 2.0719 . . 150 2615 99.00 . . . 0.3602 . 0.3264 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.0719 2.1329 . . 131 2635 99.00 . . . 0.3176 . 0.3094 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.1329 2.2017 . . 127 2666 100.00 . . . 0.2940 . 0.2852 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2017 2.2804 . . 144 2624 100.00 . . . 0.3154 . 0.2772 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2804 2.3717 . . 134 2647 100.00 . . . 0.2741 . 0.2583 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.3717 2.4796 . . 128 2632 100.00 . . . 0.2663 . 0.2557 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.4796 2.6104 . . 156 2654 100.00 . . . 0.2774 . 0.2431 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.6104 2.7739 . . 121 2646 100.00 . . . 0.2997 . 0.2406 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.7739 2.9880 . . 141 2646 100.00 . . . 0.2391 . 0.2205 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.9880 3.2887 . . 144 2619 99.00 . . . 0.1837 . 0.1831 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.2887 3.7644 . . 132 2652 100.00 . . . 0.1408 . 0.1534 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.7644 4.7422 . . 146 2646 100.00 . . . 0.1739 . 0.1493 . . . . . . . . . . 'X-RAY DIFFRACTION' 4.7422 50.1849 . . 176 2597 100.00 . . . 0.1914 . 0.1514 . . . . . . . . . . # _struct.entry_id 5NDH _struct.title 'The structure of the G. violaceus guanidine II riboswitch P2 stem-loop' _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 5NDH _struct_keywords.text 'guanidine II riboswitch, stem-loop, tetra loop, dimer, 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 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 4 ? H N N 2 ? I N N 3 ? J N N 3 ? K N N 2 ? L N N 3 ? M N N 2 ? N N N 5 ? O N N 5 ? P N N 6 ? Q N N 6 ? R N N 6 ? S N N 6 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5NDH _struct_ref.pdbx_db_accession 5NDH _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 5NDH A 1 ? 16 ? 5NDH 1 ? 16 ? 1 16 2 1 5NDH B 1 ? 16 ? 5NDH 1 ? 16 ? 1 16 3 1 5NDH C 1 ? 16 ? 5NDH 1 ? 16 ? 1 16 4 1 5NDH D 1 ? 16 ? 5NDH 1 ? 16 ? 1 16 # 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,C,E,F,G,K,L,P,R 2 1 B,D,H,I,J,M,N,O,Q,S # _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 1 "O3'" ? ? ? 1_555 A CBV 2 P ? ? A G 1 A CBV 2 1_555 ? ? ? ? ? ? ? 1.624 ? ? covale2 covale one ? A CBV 2 "O3'" ? ? ? 1_555 A G 3 P ? ? A CBV 2 A G 3 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale3 covale both ? B G 1 "O3'" ? ? ? 1_555 B CBV 2 P ? ? B G 1 B CBV 2 1_555 ? ? ? ? ? ? ? 1.626 ? ? covale4 covale one ? B CBV 2 "O3'" ? ? ? 1_555 B G 3 P ? ? B CBV 2 B G 3 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale5 covale both ? C G 1 "O3'" ? ? ? 1_555 C CBV 2 P ? ? C G 1 C CBV 2 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale6 covale one ? C CBV 2 "O3'" ? ? ? 1_555 C G 3 P ? ? C CBV 2 C G 3 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale7 covale both ? D G 1 "O3'" ? ? ? 1_555 D CBV 2 P ? ? D G 1 D CBV 2 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale8 covale one ? D CBV 2 "O3'" ? ? ? 1_555 D G 3 P ? ? D CBV 2 D G 3 1_555 ? ? ? ? ? ? ? 1.597 ? ? metalc1 metalc ? ? A G 15 "O2'" ? ? ? 1_555 G MG . MG ? ? A G 15 A MG 103 1_555 ? ? ? ? ? ? ? 2.704 ? ? metalc2 metalc ? ? F NA . NA ? ? ? 1_555 R HOH . O ? ? A NA 102 C HOH 220 1_555 ? ? ? ? ? ? ? 2.568 ? ? metalc3 metalc ? ? G MG . MG ? ? ? 1_555 P HOH . O ? ? A MG 103 A HOH 216 1_555 ? ? ? ? ? ? ? 2.058 ? ? metalc4 metalc ? ? G MG . MG ? ? ? 1_555 P HOH . O ? ? A MG 103 A HOH 218 1_555 ? ? ? ? ? ? ? 2.469 ? ? metalc5 metalc ? ? G MG . MG ? ? ? 1_545 B G 4 "O2'" ? ? A MG 103 B G 4 1_555 ? ? ? ? ? ? ? 2.993 ? ? metalc6 metalc ? ? B G 3 O6 ? ? ? 1_555 I NA . NA ? ? B G 3 B NA 102 1_555 ? ? ? ? ? ? ? 2.857 ? ? metalc7 metalc ? ? C C 8 "O2'" ? ? ? 1_555 L NA . NA ? ? C C 8 C NA 102 1_555 ? ? ? ? ? ? ? 3.052 ? ? metalc8 metalc ? ? C C 8 O2 ? ? ? 1_555 L NA . NA ? ? C C 8 C NA 102 1_555 ? ? ? ? ? ? ? 3.144 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 16 N3 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 16 O2 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 16 N4 ? ? A G 1 A C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A CBV 2 N3 ? ? ? 1_555 A G 15 N1 ? ? A CBV 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A CBV 2 N4 ? ? ? 1_555 A G 15 O6 ? ? A CBV 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A CBV 2 O2 ? ? ? 1_555 A G 15 N2 ? ? A CBV 2 A G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 14 N3 ? ? A G 3 A C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 14 O2 ? ? A G 3 A C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 14 N4 ? ? A G 3 A C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 13 N3 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 13 O2 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 13 N4 ? ? A G 4 A C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 12 N3 ? ? A G 5 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 12 O2 ? ? A G 5 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 12 N4 ? ? A G 5 A C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 N1 ? ? ? 1_555 A C 11 N3 ? ? A G 6 A C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 6 N2 ? ? ? 1_555 A C 11 O2 ? ? A G 6 A C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 6 O6 ? ? ? 1_555 A C 11 N4 ? ? A G 6 A C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 7 N6 ? ? ? 1_555 C C 11 O2 ? ? A A 7 C C 11 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog20 hydrog ? ? A C 8 N3 ? ? ? 1_555 C G 9 N1 ? ? A C 8 C G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 8 N4 ? ? ? 1_555 C G 9 O6 ? ? A C 8 C G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 8 O2 ? ? ? 1_555 C G 9 N2 ? ? A C 8 C G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 9 N1 ? ? ? 1_555 C C 8 N3 ? ? A G 9 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 9 N2 ? ? ? 1_555 C C 8 O2 ? ? A G 9 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 9 O6 ? ? ? 1_555 C C 8 N4 ? ? A G 9 C C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 11 O2 ? ? ? 1_555 C A 7 N6 ? ? A C 11 C A 7 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog27 hydrog ? ? B G 1 N1 ? ? ? 1_555 B C 16 N3 ? ? B G 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? B G 1 N2 ? ? ? 1_555 B C 16 O2 ? ? B G 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B G 1 O6 ? ? ? 1_555 B C 16 N4 ? ? B G 1 B C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B CBV 2 N3 ? ? ? 1_555 B G 15 N1 ? ? B CBV 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B CBV 2 N4 ? ? ? 1_555 B G 15 O6 ? ? B CBV 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B CBV 2 O2 ? ? ? 1_555 B G 15 N2 ? ? B CBV 2 B G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B G 3 N1 ? ? ? 1_555 B C 14 N3 ? ? B G 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B G 3 N2 ? ? ? 1_555 B C 14 O2 ? ? B G 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B G 3 O6 ? ? ? 1_555 B C 14 N4 ? ? B G 3 B C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B G 4 N1 ? ? ? 1_555 B C 13 N3 ? ? B G 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B G 4 N2 ? ? ? 1_555 B C 13 O2 ? ? B G 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B G 4 O6 ? ? ? 1_555 B C 13 N4 ? ? B G 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B G 5 N1 ? ? ? 1_555 B C 12 N3 ? ? B G 5 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B G 5 N2 ? ? ? 1_555 B C 12 O2 ? ? B G 5 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? B G 5 O6 ? ? ? 1_555 B C 12 N4 ? ? B G 5 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? B G 6 N1 ? ? ? 1_555 B C 11 N3 ? ? B G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? B G 6 N2 ? ? ? 1_555 B C 11 O2 ? ? B G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? B G 6 O6 ? ? ? 1_555 B C 11 N4 ? ? B G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? B A 7 N6 ? ? ? 1_555 D C 11 O2 ? ? B A 7 D C 11 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog46 hydrog ? ? B C 8 N3 ? ? ? 1_555 D G 9 N1 ? ? B C 8 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? B C 8 N4 ? ? ? 1_555 D G 9 O6 ? ? B C 8 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? B C 8 O2 ? ? ? 1_555 D G 9 N2 ? ? B C 8 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? B G 9 N1 ? ? ? 1_555 D C 8 N3 ? ? B G 9 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? B G 9 N2 ? ? ? 1_555 D C 8 O2 ? ? B G 9 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? B G 9 O6 ? ? ? 1_555 D C 8 N4 ? ? B G 9 D C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? B C 11 O2 ? ? ? 1_555 D A 7 N6 ? ? B C 11 D A 7 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog53 hydrog ? ? C G 1 N1 ? ? ? 1_555 C C 16 N3 ? ? C G 1 C C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C G 1 N2 ? ? ? 1_555 C C 16 O2 ? ? C G 1 C C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C G 1 O6 ? ? ? 1_555 C C 16 N4 ? ? C G 1 C C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C CBV 2 N3 ? ? ? 1_555 C G 15 N1 ? ? C CBV 2 C G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C CBV 2 N4 ? ? ? 1_555 C G 15 O6 ? ? C CBV 2 C G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C CBV 2 O2 ? ? ? 1_555 C G 15 N2 ? ? C CBV 2 C G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C G 3 N1 ? ? ? 1_555 C C 14 N3 ? ? C G 3 C C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C G 3 N2 ? ? ? 1_555 C C 14 O2 ? ? C G 3 C C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C G 3 O6 ? ? ? 1_555 C C 14 N4 ? ? C G 3 C C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C G 4 N1 ? ? ? 1_555 C C 13 N3 ? ? C G 4 C C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C G 4 N2 ? ? ? 1_555 C C 13 O2 ? ? C G 4 C C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C G 4 O6 ? ? ? 1_555 C C 13 N4 ? ? C G 4 C C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C G 5 N1 ? ? ? 1_555 C C 12 N3 ? ? C G 5 C C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? C G 5 N2 ? ? ? 1_555 C C 12 O2 ? ? C G 5 C C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? C G 5 O6 ? ? ? 1_555 C C 12 N4 ? ? C G 5 C C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? C G 6 N1 ? ? ? 1_555 C C 11 N3 ? ? C G 6 C C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C G 6 N2 ? ? ? 1_555 C C 11 O2 ? ? C G 6 C C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? C G 6 O6 ? ? ? 1_555 C C 11 N4 ? ? C G 6 C C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? D G 1 N1 ? ? ? 1_555 D C 16 N3 ? ? D G 1 D C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? D G 1 N2 ? ? ? 1_555 D C 16 O2 ? ? D G 1 D C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? D G 1 O6 ? ? ? 1_555 D C 16 N4 ? ? D G 1 D C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? D CBV 2 N3 ? ? ? 1_555 D G 15 N1 ? ? D CBV 2 D G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? D CBV 2 N4 ? ? ? 1_555 D G 15 O6 ? ? D CBV 2 D G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? D CBV 2 O2 ? ? ? 1_555 D G 15 N2 ? ? D CBV 2 D G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? D G 3 N1 ? ? ? 1_555 D C 14 N3 ? ? D G 3 D C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? D G 3 N2 ? ? ? 1_555 D C 14 O2 ? ? D G 3 D C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? D G 3 O6 ? ? ? 1_555 D C 14 N4 ? ? D G 3 D C 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? D G 4 N1 ? ? ? 1_555 D C 13 N3 ? ? D G 4 D C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? D G 4 N2 ? ? ? 1_555 D C 13 O2 ? ? D G 4 D C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? D G 4 O6 ? ? ? 1_555 D C 13 N4 ? ? D G 4 D C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog83 hydrog ? ? D G 5 N1 ? ? ? 1_555 D C 12 N3 ? ? D G 5 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog84 hydrog ? ? D G 5 N2 ? ? ? 1_555 D C 12 O2 ? ? D G 5 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? D G 5 O6 ? ? ? 1_555 D C 12 N4 ? ? D G 5 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? D G 6 N1 ? ? ? 1_555 D C 11 N3 ? ? D G 6 D C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? D G 6 N2 ? ? ? 1_555 D C 11 O2 ? ? D G 6 D C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? D G 6 O6 ? ? ? 1_555 D C 11 N4 ? ? D G 6 D C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 "O2'" ? A G 15 ? A G 15 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 O ? P HOH . ? A HOH 216 ? 1_555 83.9 ? 2 "O2'" ? A G 15 ? A G 15 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 O ? P HOH . ? A HOH 218 ? 1_555 170.7 ? 3 O ? P HOH . ? A HOH 216 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 O ? P HOH . ? A HOH 218 ? 1_555 87.1 ? 4 "O2'" ? A G 15 ? A G 15 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 "O2'" ? B G 4 ? B G 4 ? 1_555 115.4 ? 5 O ? P HOH . ? A HOH 216 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 "O2'" ? B G 4 ? B G 4 ? 1_555 145.8 ? 6 O ? P HOH . ? A HOH 218 ? 1_555 MG ? G MG . ? A MG 103 ? 1_555 "O2'" ? B G 4 ? B G 4 ? 1_555 73.7 ? 7 "O2'" ? C C 8 ? C C 8 ? 1_555 NA ? L NA . ? C NA 102 ? 1_555 O2 ? C C 8 ? C C 8 ? 1_555 71.6 ? # 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 GAI 101 ? 4 'binding site for residue GAI A 101' AC2 Software A NA 102 ? 2 'binding site for residue NA A 102' AC3 Software A MG 103 ? 5 'binding site for residue MG A 103' AC4 Software B GAI 101 ? 4 'binding site for residue GAI B 101' AC5 Software B NA 102 ? 3 'binding site for residue NA B 102' AC6 Software B NA 103 ? 1 'binding site for residue NA B 103' AC7 Software C GAI 101 ? 4 'binding site for residue GAI C 101' AC8 Software C NA 102 ? 2 'binding site for residue NA C 102' AC9 Software D GAI 101 ? 4 'binding site for residue GAI D 101' AD1 Software D SO4 102 ? 6 'binding site for residue SO4 D 102' AD2 Software D SO4 103 ? 4 'binding site for residue SO4 D 103' AD3 Software B G 1 ? 8 'binding site for Di-nucleotide G B 1 and CBV B 2' AD4 Software B CBV 2 ? 10 'binding site for Di-nucleotide CBV B 2 and G B 3' AD5 Software C G 1 ? 8 'binding site for Di-nucleotide G C 1 and CBV C 2' AD6 Software C CBV 2 ? 9 'binding site for Di-nucleotide CBV C 2 and G C 3' AD7 Software D G 1 ? 7 'binding site for Di-nucleotide G D 1 and CBV D 2' AD8 Software D CBV 2 ? 7 'binding site for Di-nucleotide CBV D 2 and G D 3' # 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 6 ? G A 6 . ? 1_555 ? 2 AC1 4 A A 7 ? A A 7 . ? 1_555 ? 3 AC1 4 C A 8 ? C A 8 . ? 1_555 ? 4 AC1 4 G A 9 ? G A 9 . ? 1_555 ? 5 AC2 2 C A 8 ? C A 8 . ? 1_555 ? 6 AC2 2 HOH R . ? HOH C 220 . ? 1_555 ? 7 AC3 5 G A 15 ? G A 15 . ? 1_555 ? 8 AC3 5 C A 16 ? C A 16 . ? 1_555 ? 9 AC3 5 HOH P . ? HOH A 216 . ? 1_555 ? 10 AC3 5 HOH P . ? HOH A 218 . ? 1_555 ? 11 AC3 5 G B 4 ? G B 4 . ? 1_565 ? 12 AC4 4 G B 6 ? G B 6 . ? 1_555 ? 13 AC4 4 A B 7 ? A B 7 . ? 1_555 ? 14 AC4 4 C B 8 ? C B 8 . ? 1_555 ? 15 AC4 4 G B 9 ? G B 9 . ? 1_555 ? 16 AC5 3 CBV B 2 ? CBV B 2 . ? 1_555 ? 17 AC5 3 G B 3 ? G B 3 . ? 1_555 ? 18 AC5 3 G B 4 ? G B 4 . ? 1_555 ? 19 AC6 1 G B 1 ? G B 1 . ? 1_555 ? 20 AC7 4 G C 6 ? G C 6 . ? 1_555 ? 21 AC7 4 A C 7 ? A C 7 . ? 1_555 ? 22 AC7 4 C C 8 ? C C 8 . ? 1_555 ? 23 AC7 4 G C 9 ? G C 9 . ? 1_555 ? 24 AC8 2 C A 11 ? C A 11 . ? 1_555 ? 25 AC8 2 C C 8 ? C C 8 . ? 1_555 ? 26 AC9 4 G D 6 ? G D 6 . ? 1_555 ? 27 AC9 4 A D 7 ? A D 7 . ? 1_555 ? 28 AC9 4 C D 8 ? C D 8 . ? 1_555 ? 29 AC9 4 G D 9 ? G D 9 . ? 1_555 ? 30 AD1 6 A B 10 ? A B 10 . ? 1_555 ? 31 AD1 6 G C 4 ? G C 4 . ? 4_455 ? 32 AD1 6 G C 5 ? G C 5 . ? 4_455 ? 33 AD1 6 A D 10 ? A D 10 . ? 1_555 ? 34 AD1 6 HOH S . ? HOH D 202 . ? 1_555 ? 35 AD1 6 HOH S . ? HOH D 218 . ? 1_555 ? 36 AD2 4 G D 4 ? G D 4 . ? 1_555 ? 37 AD2 4 C D 13 ? C D 13 . ? 1_555 ? 38 AD2 4 C D 14 ? C D 14 . ? 1_555 ? 39 AD2 4 HOH S . ? HOH D 205 . ? 1_555 ? 40 AD3 8 G B 3 ? G B 3 . ? 1_555 ? 41 AD3 8 G B 15 ? G B 15 . ? 1_555 ? 42 AD3 8 C B 16 ? C B 16 . ? 1_555 ? 43 AD3 8 NA I . ? NA B 102 . ? 1_555 ? 44 AD3 8 NA J . ? NA B 103 . ? 1_555 ? 45 AD3 8 HOH Q . ? HOH B 213 . ? 1_555 ? 46 AD3 8 G C 1 ? G C 1 . ? 1_555 ? 47 AD3 8 C C 16 ? C C 16 . ? 1_555 ? 48 AD4 10 G A 15 ? G A 15 . ? 1_545 ? 49 AD4 10 HOH P . ? HOH A 206 . ? 1_545 ? 50 AD4 10 HOH P . ? HOH A 207 . ? 1_545 ? 51 AD4 10 G B 1 ? G B 1 . ? 1_555 ? 52 AD4 10 G B 4 ? G B 4 . ? 1_555 ? 53 AD4 10 C B 14 ? C B 14 . ? 1_555 ? 54 AD4 10 G B 15 ? G B 15 . ? 1_555 ? 55 AD4 10 C B 16 ? C B 16 . ? 1_555 ? 56 AD4 10 NA I . ? NA B 102 . ? 1_555 ? 57 AD4 10 HOH Q . ? HOH B 213 . ? 1_555 ? 58 AD5 8 G B 1 ? G B 1 . ? 1_555 ? 59 AD5 8 C B 16 ? C B 16 . ? 1_555 ? 60 AD5 8 G C 3 ? G C 3 . ? 1_555 ? 61 AD5 8 G C 15 ? G C 15 . ? 1_555 ? 62 AD5 8 C C 16 ? C C 16 . ? 1_555 ? 63 AD5 8 HOH R . ? HOH C 201 . ? 1_555 ? 64 AD5 8 HOH R . ? HOH C 207 . ? 1_555 ? 65 AD5 8 HOH R . ? HOH C 213 . ? 1_555 ? 66 AD6 9 A B 10 ? A B 10 . ? 4_555 ? 67 AD6 9 G C 1 ? G C 1 . ? 1_555 ? 68 AD6 9 G C 4 ? G C 4 . ? 1_555 ? 69 AD6 9 C C 14 ? C C 14 . ? 1_555 ? 70 AD6 9 G C 15 ? G C 15 . ? 1_555 ? 71 AD6 9 C C 16 ? C C 16 . ? 1_555 ? 72 AD6 9 HOH R . ? HOH C 201 . ? 1_555 ? 73 AD6 9 HOH R . ? HOH C 212 . ? 1_555 ? 74 AD6 9 HOH R . ? HOH C 213 . ? 1_555 ? 75 AD7 7 G A 1 ? G A 1 . ? 1_445 ? 76 AD7 7 C A 16 ? C A 16 . ? 1_445 ? 77 AD7 7 HOH P . ? HOH A 211 . ? 1_445 ? 78 AD7 7 G D 3 ? G D 3 . ? 1_555 ? 79 AD7 7 G D 15 ? G D 15 . ? 1_555 ? 80 AD7 7 C D 16 ? C D 16 . ? 1_555 ? 81 AD7 7 HOH S . ? HOH D 222 . ? 1_555 ? 82 AD8 7 A A 10 ? A A 10 . ? 3_545 ? 83 AD8 7 G D 1 ? G D 1 . ? 1_555 ? 84 AD8 7 G D 4 ? G D 4 . ? 1_555 ? 85 AD8 7 C D 14 ? C D 14 . ? 1_555 ? 86 AD8 7 G D 15 ? G D 15 . ? 1_555 ? 87 AD8 7 HOH S . ? HOH D 208 . ? 1_555 ? 88 AD8 7 HOH S . ? HOH D 222 . ? 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 1 ? ? O3P A CBV 2 ? ? 0.40 2 1 "O3'" B G 1 ? ? O2P B CBV 2 ? ? 0.41 3 1 "HO3'" B CBV 2 ? ? P B G 3 ? ? 0.80 4 1 "HO3'" C CBV 2 ? ? P C G 3 ? ? 0.80 5 1 "HO3'" D CBV 2 ? ? P D G 3 ? ? 0.81 6 1 "HO3'" A CBV 2 ? ? P A G 3 ? ? 0.84 7 1 O3P C CBV 2 ? ? O C HOH 201 ? ? 1.90 8 1 O B HOH 208 ? ? O B HOH 216 ? ? 2.15 # 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 15.1912 46.1383 13.8955 0.3149 0.3374 0.3695 -0.0475 -0.0408 0.0451 0.5762 6.6858 0.2316 0.7111 -0.2052 0.5638 -0.0023 -0.0131 0.1387 -0.2399 -0.1042 -0.3906 -0.0548 -0.0322 0.1249 'X-RAY DIFFRACTION' 2 ? refined 5.2622 5.1741 11.7150 0.3744 0.3082 0.3352 -0.0505 -0.0625 0.0183 4.1639 1.0494 0.6855 0.3001 -0.3524 0.3086 -0.0139 -0.1853 0.1503 0.1400 -0.0287 -0.0986 -0.0280 0.0371 -0.0038 'X-RAY DIFFRACTION' 3 ? refined 14.6230 25.5320 3.0236 0.3901 0.2802 0.2507 -0.0491 -0.0063 0.0459 1.3433 2.9869 2.7038 -0.1284 -0.0552 1.3653 0.1026 -0.0357 0.0380 -0.3138 0.0018 0.0423 -0.1226 -0.1911 -0.1637 'X-RAY DIFFRACTION' 4 ? refined -15.1431 2.1838 22.3261 0.3491 0.4058 0.2960 -0.0710 -0.0578 0.0139 2.2800 1.3227 3.8447 -0.2884 -1.1488 -0.4821 0.0079 -0.2186 -0.1423 -0.0753 0.1252 0.0106 -0.0057 0.1700 -0.1160 # 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 16 ) ; 'X-RAY DIFFRACTION' 2 2 ? ? ? ? ? ? ? ? ? ;chain 'B' and (resid 1 through 16 ) ; 'X-RAY DIFFRACTION' 3 3 ? ? ? ? ? ? ? ? ? ;chain 'C' and (resid 1 through 16 ) ; 'X-RAY DIFFRACTION' 4 4 ? ? ? ? ? ? ? ? ? ;chain 'D' and (resid 1 through 16 ) ; # 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 GAI C C N N 146 GAI N1 N N N 147 GAI N2 N N N 148 GAI N3 N N N 149 GAI HN1 H N N 150 GAI HN21 H N N 151 GAI HN22 H N N 152 GAI HN31 H N N 153 GAI HN32 H N N 154 HOH O O N N 155 HOH H1 H N N 156 HOH H2 H N N 157 MG MG MG N N 158 NA NA NA N N 159 SO4 S S N N 160 SO4 O1 O N N 161 SO4 O2 O N N 162 SO4 O3 O N N 163 SO4 O4 O N N 164 # 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 GAI C N1 doub N N 152 GAI C N2 sing N N 153 GAI C N3 sing N N 154 GAI N1 HN1 sing N N 155 GAI N2 HN21 sing N N 156 GAI N2 HN22 sing N N 157 GAI N3 HN31 sing N N 158 GAI N3 HN32 sing N N 159 HOH O H1 sing N N 160 HOH O H2 sing N N 161 SO4 S O1 doub N N 162 SO4 S O2 doub N N 163 SO4 S O3 sing N N 164 SO4 S O4 sing N N 165 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5NDH 'double helix' 5NDH 'a-form double helix' 5NDH 'hairpin loop' 5NDH '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 1 1_555 A C 16 1_555 -0.258 -0.097 -0.078 -6.387 -9.671 2.292 1 A_G1:C16_A A 1 ? A 16 ? 19 1 1 A CBV 2 1_555 A G 15 1_555 0.028 -0.140 0.154 1.678 -8.903 -1.953 2 A_CBV2:G15_A A 2 ? A 15 ? 19 1 1 A G 3 1_555 A C 14 1_555 -0.159 -0.059 -0.236 -6.997 -10.073 5.032 3 A_G3:C14_A A 3 ? A 14 ? 19 1 1 A G 4 1_555 A C 13 1_555 -0.365 -0.235 -0.247 -5.213 -4.431 -3.334 4 A_G4:C13_A A 4 ? A 13 ? 19 1 1 A G 5 1_555 A C 12 1_555 -0.088 -0.025 -0.202 -5.175 -6.664 0.861 5 A_G5:C12_A A 5 ? A 12 ? 19 1 1 A G 6 1_555 A C 11 1_555 -0.089 -0.057 -0.121 -2.020 -0.316 -0.491 6 A_G6:C11_A A 6 ? A 11 ? 19 1 1 C C 8 1_555 A G 9 1_555 0.132 -0.169 0.037 4.854 -10.609 -3.204 7 C_C8:G9_A C 8 ? A 9 ? 19 1 1 C G 9 1_555 A C 8 1_555 -0.144 -0.104 -0.116 -8.633 -14.889 -0.890 8 C_G9:C8_A C 9 ? A 8 ? 19 1 1 C C 11 1_555 C G 6 1_555 0.096 -0.032 -0.156 5.024 -1.378 -2.941 9 C_C11:G6_C C 11 ? C 6 ? 19 1 1 C C 12 1_555 C G 5 1_555 0.180 -0.074 -0.202 9.690 -9.014 -0.204 10 C_C12:G5_C C 12 ? C 5 ? 19 1 1 C C 13 1_555 C G 4 1_555 0.182 -0.152 -0.425 11.066 -11.748 0.366 11 C_C13:G4_C C 13 ? C 4 ? 19 1 1 C C 14 1_555 C G 3 1_555 0.101 -0.242 0.064 2.444 -8.915 0.199 12 C_C14:G3_C C 14 ? C 3 ? 19 1 1 C G 15 1_555 C CBV 2 1_555 -0.206 -0.183 0.092 -2.322 -10.609 -3.599 13 C_G15:CBV2_C C 15 ? C 2 ? 19 1 1 C C 16 1_555 C G 1 1_555 0.054 -0.055 0.031 4.866 -6.521 -0.008 14 C_C16:G1_C C 16 ? C 1 ? 19 1 1 B G 1 1_555 B C 16 1_555 -0.378 -0.149 0.171 -1.842 -4.469 1.881 15 B_G1:C16_B B 1 ? B 16 ? 19 1 1 B CBV 2 1_555 B G 15 1_555 0.118 -0.062 -0.093 4.010 -6.786 0.322 16 B_CBV2:G15_B B 2 ? B 15 ? 19 1 1 B G 3 1_555 B C 14 1_555 -0.255 -0.113 0.086 -0.355 -9.441 -2.123 17 B_G3:C14_B B 3 ? B 14 ? 19 1 1 B G 4 1_555 B C 13 1_555 -0.083 -0.145 -0.054 -5.189 -11.189 1.556 18 B_G4:C13_B B 4 ? B 13 ? 19 1 1 B G 5 1_555 B C 12 1_555 -0.192 -0.211 0.037 -2.309 -4.052 -4.561 19 B_G5:C12_B B 5 ? B 12 ? 19 1 1 B G 6 1_555 B C 11 1_555 0.046 -0.134 -0.147 -2.856 -0.889 -2.015 20 B_G6:C11_B B 6 ? B 11 ? 19 1 1 D C 8 1_555 B G 9 1_555 0.012 -0.101 0.071 0.462 -9.904 -1.180 21 D_C8:G9_B D 8 ? B 9 ? 19 1 1 D G 9 1_555 B C 8 1_555 -0.191 -0.084 0.144 -3.064 -12.633 -0.067 22 D_G9:C8_B D 9 ? B 8 ? 19 1 1 D C 11 1_555 D G 6 1_555 0.098 -0.155 -0.065 2.398 0.814 -4.078 23 D_C11:G6_D D 11 ? D 6 ? 19 1 1 D C 12 1_555 D G 5 1_555 0.166 -0.215 -0.144 7.530 -6.313 -1.216 24 D_C12:G5_D D 12 ? D 5 ? 19 1 1 D C 13 1_555 D G 4 1_555 0.258 -0.054 -0.113 7.928 -9.644 1.360 25 D_C13:G4_D D 13 ? D 4 ? 19 1 1 D C 14 1_555 D G 3 1_555 0.262 -0.198 -0.055 0.205 -8.059 -1.948 26 D_C14:G3_D D 14 ? D 3 ? 19 1 1 D G 15 1_555 D CBV 2 1_555 -0.152 -0.075 0.034 -1.153 -9.212 -1.400 27 D_G15:CBV2_D D 15 ? D 2 ? 19 1 1 D C 16 1_555 D G 1 1_555 0.321 -0.215 0.007 5.208 -1.894 -1.369 28 D_C16:G1_D D 16 ? D 1 ? 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 1 1_555 A C 16 1_555 A CBV 2 1_555 A G 15 1_555 -0.704 -1.742 3.151 -2.933 0.728 31.925 -3.281 0.764 3.162 1.319 5.317 32.064 1 AA_G1CBV2:G15C16_AA A 1 ? A 16 ? A 2 ? A 15 ? 1 A CBV 2 1_555 A G 15 1_555 A G 3 1_555 A C 14 1_555 1.059 -1.838 3.450 3.088 8.428 29.429 -5.112 -1.396 2.918 16.123 -5.908 30.739 2 AA_CBV2G3:C14G15_AA A 2 ? A 15 ? A 3 ? A 14 ? 1 A G 3 1_555 A C 14 1_555 A G 4 1_555 A C 13 1_555 -1.055 -1.773 3.224 -2.241 4.749 29.535 -4.361 1.598 2.978 9.224 4.352 29.988 3 AA_G3G4:C13C14_AA A 3 ? A 14 ? A 4 ? A 13 ? 1 A G 4 1_555 A C 13 1_555 A G 5 1_555 A C 12 1_555 0.651 -1.993 3.325 1.254 3.250 31.097 -4.303 -0.972 3.129 6.038 -2.329 31.287 4 AA_G4G5:C12C13_AA A 4 ? A 13 ? A 5 ? A 12 ? 1 A G 5 1_555 A C 12 1_555 A G 6 1_555 A C 11 1_555 -0.158 -2.079 3.233 0.122 3.111 28.412 -4.887 0.347 2.992 6.315 -0.247 28.578 5 AA_G5G6:C11C12_AA A 5 ? A 12 ? A 6 ? A 11 ? 1 A G 6 1_555 A C 11 1_555 C C 8 1_555 A G 9 1_555 -3.608 0.070 3.220 -5.563 -4.316 107.096 0.100 2.167 3.344 -2.681 3.455 107.256 6 AC_G6C8:G9C11_AA A 6 ? A 11 ? C 8 ? A 9 ? 1 C C 8 1_555 A G 9 1_555 C G 9 1_555 A C 8 1_555 0.326 -1.470 3.735 1.567 7.658 37.538 -3.296 -0.281 3.391 11.744 -2.402 38.314 7 CC_C8G9:C8G9_AA C 8 ? A 9 ? C 9 ? A 8 ? 1 C G 9 1_555 A C 8 1_555 C C 11 1_555 C G 6 1_555 3.618 0.217 2.929 4.763 -1.349 107.588 0.150 -2.184 3.036 -0.835 -2.950 107.666 8 CC_G9C11:G6C8_CA C 9 ? A 8 ? C 11 ? C 6 ? 1 C C 11 1_555 C G 6 1_555 C C 12 1_555 C G 5 1_555 -0.023 -1.931 3.164 -0.939 4.032 28.484 -4.721 -0.148 2.868 8.140 1.895 28.778 9 CC_C11C12:G5G6_CC C 11 ? C 6 ? C 12 ? C 5 ? 1 C C 12 1_555 C G 5 1_555 C C 13 1_555 C G 4 1_555 -0.480 -1.784 3.272 -0.046 4.438 31.326 -4.064 0.873 2.998 8.167 0.084 31.631 10 CC_C12C13:G4G5_CC C 12 ? C 5 ? C 13 ? C 4 ? 1 C C 13 1_555 C G 4 1_555 C C 14 1_555 C G 3 1_555 -0.201 -1.788 3.467 -4.509 9.969 31.274 -4.796 -0.396 2.783 17.824 8.062 33.087 11 CC_C13C14:G3G4_CC C 13 ? C 4 ? C 14 ? C 3 ? 1 C C 14 1_555 C G 3 1_555 C G 15 1_555 C CBV 2 1_555 0.032 -1.971 3.210 0.596 8.321 29.608 -5.190 0.045 2.574 15.890 -1.138 30.736 12 CC_C14G15:CBV2G3_CC C 14 ? C 3 ? C 15 ? C 2 ? 1 C G 15 1_555 C CBV 2 1_555 C C 16 1_555 C G 1 1_555 0.524 -1.868 3.180 1.766 0.678 32.019 -3.499 -0.640 3.165 1.228 -3.198 32.074 13 CC_G15C16:G1CBV2_CC C 15 ? C 2 ? C 16 ? C 1 ? 1 C C 16 1_555 C G 1 1_555 B G 1 1_555 B C 16 1_555 0.149 -3.885 3.387 -1.714 5.862 -18.656 7.940 -0.574 4.385 -17.487 -5.113 -19.622 14 CB_C16G1:C16G1_BC C 16 ? C 1 ? B 1 ? B 16 ? 1 B G 1 1_555 B C 16 1_555 B CBV 2 1_555 B G 15 1_555 -0.193 -1.969 3.187 0.888 0.336 34.070 -3.411 0.467 3.162 0.574 -1.515 34.083 15 BB_G1CBV2:G15C16_BB B 1 ? B 16 ? B 2 ? B 15 ? 1 B CBV 2 1_555 B G 15 1_555 B G 3 1_555 B C 14 1_555 -0.847 -1.875 3.300 -2.136 9.886 25.547 -6.183 1.304 2.477 21.321 4.607 27.446 16 BB_CBV2G3:C14G15_BB B 2 ? B 15 ? B 3 ? B 14 ? 1 B G 3 1_555 B C 14 1_555 B G 4 1_555 B C 13 1_555 0.829 -1.955 3.332 1.127 8.616 33.124 -4.614 -1.241 2.777 14.797 -1.936 34.214 17 BB_G3G4:C13C14_BB B 3 ? B 14 ? B 4 ? B 13 ? 1 B G 4 1_555 B C 13 1_555 B G 5 1_555 B C 12 1_555 -0.361 -1.703 3.232 0.207 0.975 30.139 -3.468 0.735 3.174 1.875 -0.398 30.155 18 BB_G4G5:C12C13_BB B 4 ? B 13 ? B 5 ? B 12 ? 1 B G 5 1_555 B C 12 1_555 B G 6 1_555 B C 11 1_555 0.322 -2.011 3.304 2.149 3.106 31.015 -4.314 -0.197 3.108 5.782 -4.000 31.238 19 BB_G5G6:C11C12_BB B 5 ? B 12 ? B 6 ? B 11 ? 1 B G 6 1_555 B C 11 1_555 D C 8 1_555 B G 9 1_555 -3.581 0.061 3.282 -4.819 -3.802 106.323 0.090 2.170 3.390 -2.374 3.009 106.446 20 BD_G6C8:G9C11_BB B 6 ? B 11 ? D 8 ? B 9 ? 1 D C 8 1_555 B G 9 1_555 D G 9 1_555 B C 8 1_555 0.271 -1.036 3.494 0.194 7.585 36.811 -2.637 -0.394 3.226 11.856 -0.303 37.558 21 DD_C8G9:C8G9_BB D 8 ? B 9 ? D 9 ? B 8 ? 1 D G 9 1_555 B C 8 1_555 D C 11 1_555 D G 6 1_555 3.555 0.236 3.156 5.992 -2.971 108.120 0.183 -2.118 3.283 -1.833 -3.698 108.261 22 DD_G9C11:G6C8_DB D 9 ? B 8 ? D 11 ? D 6 ? 1 D C 11 1_555 D G 6 1_555 D C 12 1_555 D G 5 1_555 0.036 -1.998 3.152 -0.098 1.846 28.829 -4.392 -0.092 3.021 3.703 0.196 28.887 23 DD_C11C12:G5G6_DD D 11 ? D 6 ? D 12 ? D 5 ? 1 D C 12 1_555 D G 5 1_555 D C 13 1_555 D G 4 1_555 -0.141 -1.824 3.307 -1.655 2.921 32.514 -3.741 -0.033 3.139 5.200 2.947 32.682 24 DD_C12C13:G4G5_DD D 12 ? D 5 ? D 13 ? D 4 ? 1 D C 13 1_555 D G 4 1_555 D C 14 1_555 D G 3 1_555 -0.733 -1.815 3.416 -1.233 8.396 30.829 -4.785 1.114 2.861 15.430 2.265 31.948 25 DD_C13C14:G3G4_DD D 13 ? D 4 ? D 14 ? D 3 ? 1 D C 14 1_555 D G 3 1_555 D G 15 1_555 D CBV 2 1_555 0.341 -1.763 3.219 -0.071 8.978 28.568 -5.097 -0.673 2.558 17.651 0.139 29.918 26 DD_C14G15:CBV2G3_DD D 14 ? D 3 ? D 15 ? D 2 ? 1 D G 15 1_555 D CBV 2 1_555 D C 16 1_555 D G 1 1_555 0.431 -1.919 3.187 0.195 1.716 31.623 -3.821 -0.756 3.084 3.147 -0.358 31.669 27 DD_G15C16:G1CBV2_DD D 15 ? D 2 ? D 16 ? D 1 ? # _pdbx_audit_support.funding_organization 'Cancer Research UK' _pdbx_audit_support.country 'United Kingdom' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 5NDH _atom_sites.fract_transf_matrix[1][1] 0.020523 _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] 0.017293 _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] 0.009915 _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 MG N NA O P S # loop_