data_434D # _entry.id 434D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 434D pdb_0000434d 10.2210/pdb434d/pdb RCSB AR0009 ? ? WWPDB D_1000179229 ? ? # 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 1999-06-14 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-28 5 'Structure model' 1 4 2024-04-03 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 5 'Structure model' 'Refinement description' # 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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' diffrn_source 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 4 'Structure model' struct_site 8 5 'Structure model' pdbx_initial_refinement_model # 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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_comp_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_atom_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_comp_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 19 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 20 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 21 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 22 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 23 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 24 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 25 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 26 4 'Structure model' '_pdbx_struct_conn_angle.value' 27 4 'Structure model' '_struct_conn.pdbx_dist_value' 28 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 29 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 30 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 31 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 32 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 33 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 34 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 35 4 'Structure model' '_struct_conn.ptnr1_symmetry' 36 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 37 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 38 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 39 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 40 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 41 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 42 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 43 4 'Structure model' '_struct_conn.ptnr2_symmetry' 44 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 45 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 46 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 434D _pdbx_database_status.recvd_initial_deposition_date 1998-10-23 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Mueller, U.' 1 'Schuebel, H.' 2 'Sprinzl, M.' 3 'Heinemann, U.' 4 # _citation.id primary _citation.title 'Crystal structure of acceptor stem of tRNA(Ala) from Escherichia coli shows unique G.U wobble base pair at 1.16 A resolution.' _citation.journal_abbrev RNA _citation.journal_volume 5 _citation.page_first 670 _citation.page_last 677 _citation.year 1999 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10334337 _citation.pdbx_database_id_DOI 10.1017/S1355838299982304 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Mueller, U.' 1 ? primary 'Schubel, H.' 2 ? primary 'Sprinzl, M.' 3 ? primary 'Heinemann, U.' 4 ? # 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(*UP*AP*GP*CP*UP*CP*C)-3') ; 2157.331 2 ? ? ? ? 2 polymer syn ;RNA (5'-R(*GP*GP*GP*GP*CP*UP*A)-3') ; 2276.419 2 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 4 non-polymer syn 'STRONTIUM ION' 87.620 1 ? ? ? ? 5 water nat water 18.015 155 ? ? ? ? # 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 no UAGCUCC UAGCUCC A,C ? 2 polyribonucleotide no no GGGGCUA GGGGCUA B,D ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'SODIUM ION' NA 4 'STRONTIUM ION' SR 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 A n 1 3 G n 1 4 C n 1 5 U n 1 6 C n 1 7 C n 2 1 G n 2 2 G n 2 3 G n 2 4 G n 2 5 C n 2 6 U n 2 7 A n # 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 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 SR non-polymer . 'STRONTIUM ION' ? 'Sr 2' 87.620 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 U 1 1 1 U U A . n A 1 2 A 2 2 2 A A A . n A 1 3 G 3 3 3 G G A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 C 6 6 6 C C A . n A 1 7 C 7 7 7 C C A . n B 2 1 G 1 8 8 G G B . n B 2 2 G 2 9 9 G G B . n B 2 3 G 3 10 10 G G B . n B 2 4 G 4 11 11 G G B . n B 2 5 C 5 12 12 C C B . n B 2 6 U 6 13 13 U U B . n B 2 7 A 7 14 14 A A B . n C 1 1 U 1 1 1 U U C . n C 1 2 A 2 2 2 A A C . n C 1 3 G 3 3 3 G G C . n C 1 4 C 4 4 4 C C C . n C 1 5 U 5 5 5 U U C . n C 1 6 C 6 6 6 C C C . n C 1 7 C 7 7 7 C C C . n D 2 1 G 1 8 8 G G D . n D 2 2 G 2 9 9 G G D . n D 2 3 G 3 10 10 G G D . n D 2 4 G 4 11 11 G G D . n D 2 5 C 5 12 12 C C D . n D 2 6 U 6 13 13 U U D . n D 2 7 A 7 14 14 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 NA 1 8 2 NA NA A . F 4 SR 1 1 1 SR SR B . G 5 HOH 1 1005 1005 HOH HOH A . G 5 HOH 2 1007 1007 HOH HOH A . G 5 HOH 3 1011 1011 HOH HOH A . G 5 HOH 4 1014 1014 HOH HOH A . G 5 HOH 5 1015 1015 HOH HOH A . G 5 HOH 6 1017 1017 HOH HOH A . G 5 HOH 7 1018 1018 HOH HOH A . G 5 HOH 8 1022 1022 HOH HOH A . G 5 HOH 9 1026 1026 HOH HOH A . G 5 HOH 10 1033 1033 HOH HOH A . G 5 HOH 11 1039 1039 HOH HOH A . G 5 HOH 12 1040 1040 HOH HOH A . G 5 HOH 13 1043 1043 HOH HOH A . G 5 HOH 14 1044 1044 HOH HOH A . G 5 HOH 15 1045 1045 HOH HOH A . G 5 HOH 16 1048 1048 HOH HOH A . G 5 HOH 17 1054 1054 HOH HOH A . G 5 HOH 18 1055 1055 HOH HOH A . G 5 HOH 19 1056 1056 HOH HOH A . G 5 HOH 20 1060 1060 HOH HOH A . G 5 HOH 21 1061 1061 HOH HOH A . G 5 HOH 22 1065 1065 HOH HOH A . G 5 HOH 23 1067 1067 HOH HOH A . G 5 HOH 24 1070 1070 HOH HOH A . G 5 HOH 25 1071 1071 HOH HOH A . G 5 HOH 26 1072 1072 HOH HOH A . G 5 HOH 27 1073 1073 HOH HOH A . G 5 HOH 28 1076 1076 HOH HOH A . G 5 HOH 29 1086 1086 HOH HOH A . G 5 HOH 30 1087 1087 HOH HOH A . G 5 HOH 31 1089 1089 HOH HOH A . G 5 HOH 32 1090 1090 HOH HOH A . G 5 HOH 33 1093 1093 HOH HOH A . G 5 HOH 34 1098 1098 HOH HOH A . G 5 HOH 35 1117 1117 HOH HOH A . G 5 HOH 36 1119 1119 HOH HOH A . G 5 HOH 37 1121 1121 HOH HOH A . G 5 HOH 38 1125 1125 HOH HOH A . G 5 HOH 39 1128 1128 HOH HOH A . G 5 HOH 40 1137 1137 HOH HOH A . G 5 HOH 41 1140 1140 HOH HOH A . G 5 HOH 42 1141 1141 HOH HOH A . G 5 HOH 43 1144 1144 HOH HOH A . G 5 HOH 44 1147 1147 HOH HOH A . G 5 HOH 45 1154 1154 HOH HOH A . G 5 HOH 46 1155 1155 HOH HOH A . H 5 HOH 1 1001 1001 HOH HOH B . H 5 HOH 2 1002 1002 HOH HOH B . H 5 HOH 3 1006 1006 HOH HOH B . H 5 HOH 4 1008 1008 HOH HOH B . H 5 HOH 5 1010 1010 HOH HOH B . H 5 HOH 6 1016 1016 HOH HOH B . H 5 HOH 7 1019 1019 HOH HOH B . H 5 HOH 8 1023 1023 HOH HOH B . H 5 HOH 9 1028 1028 HOH HOH B . H 5 HOH 10 1030 1030 HOH HOH B . H 5 HOH 11 1032 1032 HOH HOH B . H 5 HOH 12 1034 1034 HOH HOH B . H 5 HOH 13 1036 1036 HOH HOH B . H 5 HOH 14 1042 1042 HOH HOH B . H 5 HOH 15 1047 1047 HOH HOH B . H 5 HOH 16 1050 1050 HOH HOH B . H 5 HOH 17 1051 1051 HOH HOH B . H 5 HOH 18 1057 1057 HOH HOH B . H 5 HOH 19 1058 1058 HOH HOH B . H 5 HOH 20 1062 1062 HOH HOH B . H 5 HOH 21 1063 1063 HOH HOH B . H 5 HOH 22 1074 1074 HOH HOH B . H 5 HOH 23 1075 1075 HOH HOH B . H 5 HOH 24 1082 1082 HOH HOH B . H 5 HOH 25 1084 1084 HOH HOH B . H 5 HOH 26 1095 1095 HOH HOH B . H 5 HOH 27 1096 1096 HOH HOH B . H 5 HOH 28 1100 1100 HOH HOH B . H 5 HOH 29 1101 1101 HOH HOH B . H 5 HOH 30 1102 1102 HOH HOH B . H 5 HOH 31 1105 1105 HOH HOH B . H 5 HOH 32 1107 1107 HOH HOH B . H 5 HOH 33 1111 1111 HOH HOH B . H 5 HOH 34 1115 1115 HOH HOH B . H 5 HOH 35 1120 1120 HOH HOH B . H 5 HOH 36 1123 1123 HOH HOH B . H 5 HOH 37 1124 1124 HOH HOH B . H 5 HOH 38 1126 1126 HOH HOH B . H 5 HOH 39 1131 1131 HOH HOH B . H 5 HOH 40 1135 1135 HOH HOH B . H 5 HOH 41 1138 1138 HOH HOH B . H 5 HOH 42 1142 1142 HOH HOH B . H 5 HOH 43 1145 1145 HOH HOH B . H 5 HOH 44 1150 1150 HOH HOH B . I 5 HOH 1 1003 1003 HOH HOH C . I 5 HOH 2 1009 1009 HOH HOH C . I 5 HOH 3 1012 1012 HOH HOH C . I 5 HOH 4 1013 1013 HOH HOH C . I 5 HOH 5 1020 1020 HOH HOH C . I 5 HOH 6 1021 1021 HOH HOH C . I 5 HOH 7 1038 1038 HOH HOH C . I 5 HOH 8 1046 1046 HOH HOH C . I 5 HOH 9 1052 1052 HOH HOH C . I 5 HOH 10 1064 1064 HOH HOH C . I 5 HOH 11 1066 1066 HOH HOH C . I 5 HOH 12 1069 1069 HOH HOH C . I 5 HOH 13 1078 1078 HOH HOH C . I 5 HOH 14 1079 1079 HOH HOH C . I 5 HOH 15 1081 1081 HOH HOH C . I 5 HOH 16 1083 1083 HOH HOH C . I 5 HOH 17 1085 1085 HOH HOH C . I 5 HOH 18 1088 1088 HOH HOH C . I 5 HOH 19 1091 1091 HOH HOH C . I 5 HOH 20 1094 1094 HOH HOH C . I 5 HOH 21 1099 1099 HOH HOH C . I 5 HOH 22 1106 1106 HOH HOH C . I 5 HOH 23 1110 1110 HOH HOH C . I 5 HOH 24 1112 1112 HOH HOH C . I 5 HOH 25 1114 1114 HOH HOH C . I 5 HOH 26 1118 1118 HOH HOH C . I 5 HOH 27 1127 1127 HOH HOH C . I 5 HOH 28 1129 1129 HOH HOH C . I 5 HOH 29 1136 1136 HOH HOH C . I 5 HOH 30 1143 1143 HOH HOH C . I 5 HOH 31 1146 1146 HOH HOH C . I 5 HOH 32 1153 1153 HOH HOH C . J 5 HOH 1 1004 1004 HOH HOH D . J 5 HOH 2 1024 1024 HOH HOH D . J 5 HOH 3 1025 1025 HOH HOH D . J 5 HOH 4 1027 1027 HOH HOH D . J 5 HOH 5 1029 1029 HOH HOH D . J 5 HOH 6 1031 1031 HOH HOH D . J 5 HOH 7 1035 1035 HOH HOH D . J 5 HOH 8 1037 1037 HOH HOH D . J 5 HOH 9 1041 1041 HOH HOH D . J 5 HOH 10 1049 1049 HOH HOH D . J 5 HOH 11 1053 1053 HOH HOH D . J 5 HOH 12 1059 1059 HOH HOH D . J 5 HOH 13 1068 1068 HOH HOH D . J 5 HOH 14 1077 1077 HOH HOH D . J 5 HOH 15 1080 1080 HOH HOH D . J 5 HOH 16 1092 1092 HOH HOH D . J 5 HOH 17 1097 1097 HOH HOH D . J 5 HOH 18 1103 1103 HOH HOH D . J 5 HOH 19 1104 1104 HOH HOH D . J 5 HOH 20 1108 1108 HOH HOH D . J 5 HOH 21 1109 1109 HOH HOH D . J 5 HOH 22 1113 1113 HOH HOH D . J 5 HOH 23 1116 1116 HOH HOH D . J 5 HOH 24 1122 1122 HOH HOH D . J 5 HOH 25 1130 1130 HOH HOH D . J 5 HOH 26 1132 1132 HOH HOH D . J 5 HOH 27 1133 1133 HOH HOH D . J 5 HOH 28 1134 1134 HOH HOH D . J 5 HOH 29 1139 1139 HOH HOH D . J 5 HOH 30 1148 1148 HOH HOH D . J 5 HOH 31 1149 1149 HOH HOH D . J 5 HOH 32 1151 1151 HOH HOH D . J 5 HOH 33 1152 1152 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CCP4 'model building' . ? 1 SHELXL-97 refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 CCP4 phasing . ? 5 # _cell.entry_id 434D _cell.length_a 26.300 _cell.length_b 28.900 _cell.length_c 28.900 _cell.angle_alpha 110.50 _cell.angle_beta 96.90 _cell.angle_gamma 96.90 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 434D _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting triclinic _symmetry.Int_Tables_number 1 # _exptl.entry_id 434D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.51 _exptl_crystal.density_percent_sol 50.7 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details 'pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 SPERMINE ? ? ? 1 2 1 'SODIUM CACODYLATE' ? ? ? 1 3 1 SRCL2 ? ? ? 1 4 1 LICL ? ? ? 1 5 1 MPD ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1997-02-03 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X11' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X11 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 434D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 15.00 _reflns.d_resolution_high 1.16 _reflns.number_obs 23758 _reflns.number_all ? _reflns.percent_possible_obs 88.4 _reflns.pdbx_Rmerge_I_obs 0.0990000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 12.6 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.7 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.16 _reflns_shell.d_res_low 1.17 _reflns_shell.percent_possible_all 75.7 _reflns_shell.Rmerge_I_obs 0.5400000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 1.5 _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 434D _refine.ls_number_reflns_obs 23758 _refine.ls_number_reflns_all 23758 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 15.00 _refine.ls_d_res_high 1.16 _refine.ls_percent_reflns_obs 88.4 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all 0.1255000 _refine.ls_R_factor_R_work 0.1236000 _refine.ls_R_factor_R_free 0.1803000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.2 _refine.ls_number_reflns_R_free 2425 _refine.ls_number_parameters 6691 _refine.ls_number_restraints 20934 _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method 'FREE R' _refine.details ? _refine.pdbx_starting_model 'CANONICAL A-FORM RNA' _refine.pdbx_method_to_determine_struct SIRAS _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'PARKINSON, G. ET AL.' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details 'THIN SHELL' _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 434D _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 11 _refine_analyze.occupancy_sum_hydrogen 0. _refine_analyze.occupancy_sum_non_hydrogen 739. _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 586 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 155 _refine_hist.number_atoms_total 743 _refine_hist.d_res_high 1.16 _refine_hist.d_res_low 15.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.007 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.019 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist 0.039 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.032 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.010 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.007 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.005 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.033 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.098 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 434D _pdbx_refine.R_factor_all_no_cutoff 0.1250000 _pdbx_refine.R_factor_obs_no_cutoff 0.1230000 _pdbx_refine.free_R_factor_no_cutoff 0.1800000 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 10.2 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 2425 _pdbx_refine.R_factor_all_4sig_cutoff 0.1170000 _pdbx_refine.R_factor_obs_4sig_cutoff 0.1152000 _pdbx_refine.free_R_factor_4sig_cutoff 0.1690000 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 10.2 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 1673 _pdbx_refine.number_reflns_obs_4sig_cutoff 16414 _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 434D _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.000000 _database_PDB_matrix.origx_vector[2] 0.000000 _database_PDB_matrix.origx_vector[3] 0.000000 # _struct.entry_id 434D _struct.title ;5'-R(*UP*AP*GP*CP*UP*CP*C)-3', 5'-R(*GP*GP*GP*GP*CP*UP*A)-3' ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 434D _struct_keywords.pdbx_keywords RNA _struct_keywords.text '7 BASE-PAIR TRNA ALA ACCEPTOR STEM, DOUBLE HELIX, 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 5 ? H N N 5 ? I N N 5 ? J N N 5 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 434D 434D ? ? ? 2 2 PDB 434D 434D ? ? ? # 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 434D A 1 ? 7 ? 434D 1 ? 7 ? 1 7 2 2 434D B 1 ? 7 ? 434D 8 ? 14 ? 8 14 3 1 434D C 1 ? 7 ? 434D 1 ? 7 ? 1 7 4 2 434D D 1 ? 7 ? 434D 8 ? 14 ? 8 14 # 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,H 2 1 C,D,I,J # _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_biol.id 1 2 # 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 metalc1 metalc ? ? A C 7 "O3'" ? ? ? 1_566 F SR . SR ? ? A C 7 B SR 1 1_555 ? ? ? ? ? ? ? 2.609 ? ? metalc2 metalc ? ? A C 7 "O2'" ? ? ? 1_566 F SR . SR ? ? A C 7 B SR 1 1_555 ? ? ? ? ? ? ? 2.709 ? ? metalc3 metalc ? ? E NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 8 A HOH 1026 1_555 ? ? ? ? ? ? ? 2.939 ? ? metalc4 metalc ? ? E NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 8 A HOH 1141 1_555 ? ? ? ? ? ? ? 2.233 ? ? metalc5 metalc ? ? E NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 8 B HOH 1001 1_555 ? ? ? ? ? ? ? 2.958 ? ? metalc6 metalc ? ? E NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 8 B HOH 1002 1_555 ? ? ? ? ? ? ? 2.218 ? ? metalc7 metalc ? ? E NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 8 B HOH 1006 1_555 ? ? ? ? ? ? ? 2.551 ? ? metalc8 metalc ? ? G HOH . O ? ? ? 1_566 F SR . SR ? ? A HOH 1015 B SR 1 1_555 ? ? ? ? ? ? ? 2.595 ? ? metalc9 metalc ? ? G HOH . O ? ? ? 1_566 F SR . SR ? ? A HOH 1017 B SR 1 1_555 ? ? ? ? ? ? ? 2.558 ? ? metalc10 metalc ? ? G HOH . O ? ? ? 1_566 F SR . SR ? ? A HOH 1022 B SR 1 1_555 ? ? ? ? ? ? ? 2.460 ? ? metalc11 metalc ? ? F SR . SR ? ? ? 1_555 B A 7 "O3'" ? ? B SR 1 B A 14 1_555 ? ? ? ? ? ? ? 2.525 ? ? metalc12 metalc ? ? F SR . SR ? ? ? 1_555 B A 7 "O2'" ? ? B SR 1 B A 14 1_555 ? ? ? ? ? ? ? 2.585 ? ? metalc13 metalc ? ? F SR . SR ? ? ? 1_555 H HOH . O ? ? B SR 1 B HOH 1023 1_555 ? ? ? ? ? ? ? 2.435 ? ? metalc14 metalc ? ? F SR . SR ? ? ? 1_555 H HOH . O ? ? B SR 1 B HOH 1034 1_555 ? ? ? ? ? ? ? 2.468 ? ? hydrog1 hydrog ? ? A U 1 N3 ? ? ? 1_555 B A 7 N1 ? ? A U 1 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A U 1 O4 ? ? ? 1_555 B A 7 N6 ? ? A U 1 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A A 2 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 2 B U 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 2 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 2 B U 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 5 N3 ? ? ? 1_555 B G 3 O6 ? ? A U 5 B G 10 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog12 hydrog ? ? A U 5 O2 ? ? ? 1_555 B G 3 N1 ? ? A U 5 B G 10 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog13 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C U 1 N3 ? ? ? 1_555 D A 7 N1 ? ? C U 1 D A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C U 1 O4 ? ? ? 1_555 D A 7 N6 ? ? C U 1 D A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C A 2 N1 ? ? ? 1_555 D U 6 N3 ? ? C A 2 D U 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C A 2 N6 ? ? ? 1_555 D U 6 O4 ? ? C A 2 D U 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 5 N3 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 5 O2 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 5 N4 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C C 4 N3 ? ? ? 1_555 D G 4 N1 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C C 4 N4 ? ? ? 1_555 D G 4 O6 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C C 4 O2 ? ? ? 1_555 D G 4 N2 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C U 5 N3 ? ? ? 1_555 D G 3 O6 ? ? C U 5 D G 10 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog30 hydrog ? ? C U 5 O2 ? ? ? 1_555 D G 3 N1 ? ? C U 5 D G 10 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog31 hydrog ? ? C C 6 N3 ? ? ? 1_555 D G 2 N1 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C C 6 N4 ? ? ? 1_555 D G 2 O6 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C C 6 O2 ? ? ? 1_555 D G 2 N2 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C C 7 N3 ? ? ? 1_555 D G 1 N1 ? ? C C 7 D G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C C 7 N4 ? ? ? 1_555 D G 1 O6 ? ? C C 7 D G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C C 7 O2 ? ? ? 1_555 D G 1 N2 ? ? C C 7 D G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference 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 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? A C 7 ? A C 7 ? 1_566 59.7 ? 2 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1015 ? 1_566 72.0 ? 3 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1015 ? 1_566 77.2 ? 4 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1017 ? 1_566 126.4 ? 5 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1017 ? 1_566 68.7 ? 6 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1017 ? 1_566 84.0 ? 7 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1022 ? 1_566 95.6 ? 8 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1022 ? 1_566 67.7 ? 9 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1022 ? 1_566 144.0 ? 10 O ? G HOH . ? A HOH 1017 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? G HOH . ? A HOH 1022 ? 1_566 76.5 ? 11 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O3'" ? B A 7 ? B A 14 ? 1_555 151.9 ? 12 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O3'" ? B A 7 ? B A 14 ? 1_555 132.0 ? 13 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O3'" ? B A 7 ? B A 14 ? 1_555 131.6 ? 14 O ? G HOH . ? A HOH 1017 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O3'" ? B A 7 ? B A 14 ? 1_555 76.7 ? 15 O ? G HOH . ? A HOH 1022 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O3'" ? B A 7 ? B A 14 ? 1_555 72.8 ? 16 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 130.4 ? 17 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 140.3 ? 18 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 72.8 ? 19 O ? G HOH . ? A HOH 1017 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 82.7 ? 20 O ? G HOH . ? A HOH 1022 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 132.6 ? 21 "O3'" ? B A 7 ? B A 14 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 "O2'" ? B A 7 ? B A 14 ? 1_555 61.1 ? 22 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 69.3 ? 23 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 98.8 ? 24 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 136.7 ? 25 O ? G HOH . ? A HOH 1017 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 135.4 ? 26 O ? G HOH . ? A HOH 1022 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 59.5 ? 27 "O3'" ? B A 7 ? B A 14 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 83.0 ? 28 "O2'" ? B A 7 ? B A 14 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1023 ? 1_555 120.8 ? 29 "O3'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 73.7 ? 30 "O2'" ? A C 7 ? A C 7 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 133.3 ? 31 O ? G HOH . ? A HOH 1015 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 87.4 ? 32 O ? G HOH . ? A HOH 1017 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 153.5 ? 33 O ? G HOH . ? A HOH 1022 ? 1_566 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 122.4 ? 34 "O3'" ? B A 7 ? B A 14 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 90.7 ? 35 "O2'" ? B A 7 ? B A 14 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 70.8 ? 36 O ? H HOH . ? B HOH 1023 ? 1_555 SR ? F SR . ? B SR 1 ? 1_555 O ? H HOH . ? B HOH 1034 ? 1_555 64.0 ? 37 O ? G HOH . ? A HOH 1026 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? G HOH . ? A HOH 1141 ? 1_555 56.9 ? 38 O ? G HOH . ? A HOH 1026 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1001 ? 1_555 149.8 ? 39 O ? G HOH . ? A HOH 1141 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1001 ? 1_555 152.2 ? 40 O ? G HOH . ? A HOH 1026 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1002 ? 1_555 121.9 ? 41 O ? G HOH . ? A HOH 1141 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1002 ? 1_555 133.7 ? 42 O ? H HOH . ? B HOH 1001 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1002 ? 1_555 51.6 ? 43 O ? G HOH . ? A HOH 1026 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1006 ? 1_555 118.0 ? 44 O ? G HOH . ? A HOH 1141 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1006 ? 1_555 118.4 ? 45 O ? H HOH . ? B HOH 1001 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1006 ? 1_555 51.5 ? 46 O ? H HOH . ? B HOH 1002 ? 1_555 NA ? E NA . ? A NA 8 ? 1_555 O ? H HOH . ? B HOH 1006 ? 1_555 102.5 ? # 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 B SR 1 ? 7 'BINDING SITE FOR RESIDUE SR B 1' AC2 Software A NA 8 ? 5 'BINDING SITE FOR RESIDUE NA A 8' # 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 7 ? C A 7 . ? 1_566 ? 2 AC1 7 HOH G . ? HOH A 1015 . ? 1_566 ? 3 AC1 7 HOH G . ? HOH A 1017 . ? 1_566 ? 4 AC1 7 HOH G . ? HOH A 1022 . ? 1_566 ? 5 AC1 7 A B 7 ? A B 14 . ? 1_555 ? 6 AC1 7 HOH H . ? HOH B 1023 . ? 1_555 ? 7 AC1 7 HOH H . ? HOH B 1034 . ? 1_555 ? 8 AC2 5 HOH G . ? HOH A 1026 . ? 1_555 ? 9 AC2 5 HOH G . ? HOH A 1141 . ? 1_555 ? 10 AC2 5 HOH H . ? HOH B 1001 . ? 1_555 ? 11 AC2 5 HOH H . ? HOH B 1002 . ? 1_555 ? 12 AC2 5 HOH H . ? HOH B 1006 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C2'" A A 2 ? ? "C1'" A A 2 ? ? 1.468 1.526 -0.058 0.008 N 2 1 "C2'" A G 3 ? ? "C1'" A G 3 ? ? 1.476 1.526 -0.050 0.008 N 3 1 "C2'" A C 6 ? ? "C1'" A C 6 ? ? 1.473 1.526 -0.053 0.008 N 4 1 "C2'" B G 10 ? ? "C1'" B G 10 ? ? 1.475 1.526 -0.051 0.008 N 5 1 "C2'" B C 12 ? ? "C1'" B C 12 ? ? 1.470 1.526 -0.056 0.008 N 6 1 "C2'" B U 13 ? ? "C1'" B U 13 ? ? 1.474 1.526 -0.052 0.008 N 7 1 "C2'" C C 4 ? ? "C1'" C C 4 ? ? 1.477 1.526 -0.049 0.008 N 8 1 "C2'" C C 6 ? ? "C1'" C C 6 ? ? 1.457 1.526 -0.069 0.008 N 9 1 "C2'" D G 8 ? ? "C1'" D G 8 ? ? 1.469 1.526 -0.057 0.008 N 10 1 "C2'" D G 9 ? ? "C1'" D G 9 ? ? 1.466 1.526 -0.060 0.008 N 11 1 "C2'" D C 12 ? ? "C1'" D C 12 ? ? 1.472 1.526 -0.054 0.008 N 12 1 "C2'" D U 13 ? ? "C1'" D U 13 ? ? 1.476 1.526 -0.050 0.008 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N1 A A 2 ? ? C6 A A 2 ? ? N6 A A 2 ? ? 114.96 118.60 -3.64 0.60 N 2 1 N7 A G 3 ? ? C8 A G 3 ? ? N9 A G 3 ? ? 116.30 113.10 3.20 0.50 N 3 1 C8 A G 3 ? ? N9 A G 3 ? ? C4 A G 3 ? ? 103.56 106.40 -2.84 0.40 N 4 1 N1 A C 7 ? ? C2 A C 7 ? ? O2 A C 7 ? ? 114.68 118.90 -4.22 0.60 N 5 1 "O5'" B G 9 ? ? "C5'" B G 9 ? ? "C4'" B G 9 ? ? 103.94 109.40 -5.46 0.80 N 6 1 "C1'" B G 9 ? ? "O4'" B G 9 ? ? "C4'" B G 9 ? ? 105.16 109.70 -4.54 0.70 N 7 1 "O5'" B G 10 ? ? "C5'" B G 10 ? ? "C4'" B G 10 ? ? 103.82 109.40 -5.58 0.80 N 8 1 "O5'" B G 11 ? ? "C5'" B G 11 ? ? "C4'" B G 11 ? ? 103.38 109.40 -6.02 0.80 N 9 1 "O5'" C A 2 ? ? "C5'" C A 2 ? ? "C4'" C A 2 ? ? 104.21 109.40 -5.19 0.80 N 10 1 "C1'" C A 2 ? ? "O4'" C A 2 ? ? "C4'" C A 2 ? ? 105.04 109.70 -4.66 0.70 N 11 1 "O4'" C A 2 ? ? "C1'" C A 2 ? ? N9 C A 2 ? ? 102.58 108.20 -5.62 0.80 N 12 1 "O5'" C G 3 ? ? "C5'" C G 3 ? ? "C4'" C G 3 ? ? 99.29 109.40 -10.11 0.80 N 13 1 P C G 3 ? ? "O5'" C G 3 ? ? "C5'" C G 3 ? ? 100.52 120.90 -20.38 1.60 N 14 1 N9 C G 3 ? ? C4 C G 3 ? ? C5 C G 3 ? ? 107.97 105.40 2.57 0.40 N 15 1 N1 C G 3 ? ? C6 C G 3 ? ? O6 C G 3 ? ? 115.72 119.90 -4.18 0.60 N 16 1 C5 C G 3 ? ? C6 C G 3 ? ? O6 C G 3 ? ? 132.48 128.60 3.88 0.60 N 17 1 C2 C C 4 ? ? N3 C C 4 ? ? C4 C C 4 ? ? 123.60 119.90 3.70 0.50 N 18 1 N3 C C 4 ? ? C4 C C 4 ? ? C5 C C 4 ? ? 118.48 121.90 -3.42 0.40 N 19 1 "C1'" C C 6 ? ? "O4'" C C 6 ? ? "C4'" C C 6 ? ? 105.33 109.70 -4.37 0.70 N 20 1 "C3'" D G 9 ? ? "C2'" D G 9 ? ? "C1'" D G 9 ? ? 96.96 101.30 -4.34 0.70 N 21 1 "C1'" D G 11 ? ? "O4'" D G 11 ? ? "C4'" D G 11 ? ? 104.43 109.70 -5.27 0.70 N 22 1 C5 D G 11 ? ? C6 D G 11 ? ? O6 D G 11 ? ? 124.92 128.60 -3.68 0.60 N 23 1 N1 D A 14 ? ? C6 D A 14 ? ? N6 D A 14 ? ? 123.39 118.60 4.79 0.60 N # 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 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 NA NA NA N N 114 SR SR SR N N 115 U OP3 O N N 116 U P P N N 117 U OP1 O N N 118 U OP2 O N N 119 U "O5'" O N N 120 U "C5'" C N N 121 U "C4'" C N R 122 U "O4'" O N N 123 U "C3'" C N S 124 U "O3'" O N N 125 U "C2'" C N R 126 U "O2'" O N N 127 U "C1'" C N R 128 U N1 N N N 129 U C2 C N N 130 U O2 O N N 131 U N3 N N N 132 U C4 C N N 133 U O4 O N N 134 U C5 C N N 135 U C6 C N N 136 U HOP3 H N N 137 U HOP2 H N N 138 U "H5'" H N N 139 U "H5''" H N N 140 U "H4'" H N N 141 U "H3'" H N N 142 U "HO3'" H N N 143 U "H2'" H N N 144 U "HO2'" H N N 145 U "H1'" H N N 146 U H3 H N N 147 U H5 H N N 148 U H6 H N N 149 # 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 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 U OP3 P sing N N 118 U OP3 HOP3 sing N N 119 U P OP1 doub N N 120 U P OP2 sing N N 121 U P "O5'" sing N N 122 U OP2 HOP2 sing N N 123 U "O5'" "C5'" sing N N 124 U "C5'" "C4'" sing N N 125 U "C5'" "H5'" sing N N 126 U "C5'" "H5''" sing N N 127 U "C4'" "O4'" sing N N 128 U "C4'" "C3'" sing N N 129 U "C4'" "H4'" sing N N 130 U "O4'" "C1'" sing N N 131 U "C3'" "O3'" sing N N 132 U "C3'" "C2'" sing N N 133 U "C3'" "H3'" sing N N 134 U "O3'" "HO3'" sing N N 135 U "C2'" "O2'" sing N N 136 U "C2'" "C1'" sing N N 137 U "C2'" "H2'" sing N N 138 U "O2'" "HO2'" sing N N 139 U "C1'" N1 sing N N 140 U "C1'" "H1'" sing N N 141 U N1 C2 sing N N 142 U N1 C6 sing N N 143 U C2 O2 doub N N 144 U C2 N3 sing N N 145 U N3 C4 sing N N 146 U N3 H3 sing N N 147 U C4 O4 doub N N 148 U C4 C5 sing N N 149 U C5 C6 doub N N 150 U C5 H5 sing N N 151 U C6 H6 sing N N 152 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 434D 'double helix' 434D 'a-form double helix' 434D '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 B G 1 1_555 A C 7 1_555 -0.261 -0.134 -0.274 -5.027 -3.394 0.368 1 B_G8:C7_A B 8 ? A 7 ? 19 1 1 B G 2 1_555 A C 6 1_555 -0.206 -0.228 0.015 -1.563 -10.429 -0.014 2 B_G9:C6_A B 9 ? A 6 ? 19 1 1 B G 3 1_555 A U 5 1_555 -2.282 -0.418 0.026 -2.845 -10.482 -6.518 3 B_G10:U5_A B 10 ? A 5 ? 28 ? 1 B G 4 1_555 A C 4 1_555 -0.342 -0.133 -0.175 -4.168 -10.532 0.251 4 B_G11:C4_A B 11 ? A 4 ? 19 1 1 B C 5 1_555 A G 3 1_555 0.303 -0.286 -0.030 0.224 -8.990 -3.738 5 B_C12:G3_A B 12 ? A 3 ? 19 1 1 B U 6 1_555 A A 2 1_555 -0.048 -0.114 0.066 0.640 -12.990 4.798 6 B_U13:A2_A B 13 ? A 2 ? 20 1 1 B A 7 1_555 A U 1 1_555 0.210 -0.098 -0.178 -0.154 -6.298 -0.819 7 B_A14:U1_A B 14 ? A 1 ? 20 1 1 C U 1 1_555 D A 7 1_555 -0.142 -0.101 0.003 -1.703 -4.400 -2.527 8 C_U1:A14_D C 1 ? D 14 ? 20 1 1 C A 2 1_555 D U 6 1_555 -0.106 -0.080 0.061 1.501 -10.838 2.951 9 C_A2:U13_D C 2 ? D 13 ? 20 1 1 C G 3 1_555 D C 5 1_555 -0.222 0.162 -0.022 -3.223 -15.525 8.006 10 C_G3:C12_D C 3 ? D 12 ? 19 1 1 C C 4 1_555 D G 4 1_555 0.415 -0.120 0.048 -0.284 -7.324 -0.105 11 C_C4:G11_D C 4 ? D 11 ? 19 1 1 C U 5 1_555 D G 3 1_555 2.304 -0.568 0.009 5.887 -12.778 -2.871 12 C_U5:G10_D C 5 ? D 10 ? 28 ? 1 C C 6 1_555 D G 2 1_555 0.222 -0.154 -0.063 1.848 -15.863 1.519 13 C_C6:G9_D C 6 ? D 9 ? 19 1 1 C C 7 1_555 D G 1 1_555 0.280 -0.071 0.037 4.182 -4.789 0.281 14 C_C7:G8_D C 7 ? D 8 ? 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 B G 1 1_555 A C 7 1_555 B G 2 1_555 A C 6 1_555 -0.159 -1.801 3.237 -1.957 4.540 31.101 -4.127 -0.054 2.955 8.401 3.622 31.482 1 BB_G8G9:C6C7_AA B 8 ? A 7 ? B 9 ? A 6 ? 1 B G 2 1_555 A C 6 1_555 B G 3 1_555 A U 5 1_555 -0.105 -1.894 3.028 -2.762 8.614 27.178 -5.473 -0.314 2.329 17.720 5.682 28.617 2 BB_G9G10:U5C6_AA B 9 ? A 6 ? B 10 ? A 5 ? 1 B G 3 1_555 A U 5 1_555 B G 4 1_555 A C 4 1_555 0.038 -1.424 3.393 -1.483 8.791 37.090 -3.283 -0.244 2.987 13.581 2.290 38.110 3 BB_G10G11:C4U5_AA B 10 ? A 5 ? B 11 ? A 4 ? 1 B G 4 1_555 A C 4 1_555 B C 5 1_555 A G 3 1_555 -0.562 -1.478 3.231 -1.176 7.855 33.646 -3.633 0.775 2.842 13.339 1.998 34.545 4 BB_G11C12:G3C4_AA B 11 ? A 4 ? B 12 ? A 3 ? 1 B C 5 1_555 A G 3 1_555 B U 6 1_555 A A 2 1_555 1.108 -1.537 3.231 2.845 6.674 31.036 -3.963 -1.524 2.933 12.263 -5.228 31.853 5 BB_C12U13:A2G3_AA B 12 ? A 3 ? B 13 ? A 2 ? 1 B U 6 1_555 A A 2 1_555 B A 7 1_555 A U 1 1_555 -0.371 -1.425 3.289 0.979 7.813 35.049 -3.384 0.736 2.904 12.774 -1.601 35.895 6 BB_U13A14:U1A2_AA B 13 ? A 2 ? B 14 ? A 1 ? 1 B A 7 1_555 A U 1 1_555 C U 1 1_555 D A 7 1_555 -0.181 -3.634 3.537 -1.911 -1.303 -18.137 12.192 -1.678 3.233 4.112 -6.029 -18.282 7 BC_A14U1:A14U1_DA B 14 ? A 1 ? C 1 ? D 14 ? 1 C U 1 1_555 D A 7 1_555 C A 2 1_555 D U 6 1_555 0.096 -1.476 3.186 -2.351 8.176 30.331 -4.120 -0.580 2.692 15.254 4.386 31.474 8 CC_U1A2:U13A14_DD C 1 ? D 14 ? C 2 ? D 13 ? 1 C A 2 1_555 D U 6 1_555 C G 3 1_555 D C 5 1_555 0.832 -1.267 3.377 1.836 11.006 31.141 -4.050 -1.160 2.822 19.724 -3.291 33.033 9 CC_A2G3:C12U13_DD C 2 ? D 13 ? C 3 ? D 12 ? 1 C G 3 1_555 D C 5 1_555 C C 4 1_555 D G 4 1_555 -1.059 -1.397 3.233 -3.160 3.447 33.635 -2.936 1.316 3.162 5.920 5.428 33.949 10 CC_G3C4:G11C12_DD C 3 ? D 12 ? C 4 ? D 11 ? 1 C C 4 1_555 D G 4 1_555 C U 5 1_555 D G 3 1_555 -0.156 -1.650 3.157 -0.493 6.202 33.798 -3.687 0.194 2.821 10.557 0.840 34.350 11 CC_C4U5:G10G11_DD C 4 ? D 11 ? C 5 ? D 10 ? 1 C U 5 1_555 D G 3 1_555 C C 6 1_555 D G 2 1_555 -0.321 -2.130 3.078 1.420 12.003 26.512 -6.353 0.889 1.931 24.611 -2.911 29.092 12 CC_U5C6:G9G10_DD C 5 ? D 10 ? C 6 ? D 9 ? 1 C C 6 1_555 D G 2 1_555 C C 7 1_555 D G 1 1_555 0.109 -1.455 3.269 1.583 4.212 33.047 -3.217 0.065 3.067 7.363 -2.766 33.344 13 CC_C6C7:G8G9_DD C 6 ? D 9 ? C 7 ? D 8 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type other _pdbx_initial_refinement_model.source_name ? _pdbx_initial_refinement_model.details 'CANONICAL A-FORM RNA' # _atom_sites.entry_id 434D _atom_sites.fract_transf_matrix[1][1] 0.038023 _atom_sites.fract_transf_matrix[1][2] 0.004601 _atom_sites.fract_transf_matrix[1][3] 0.006785 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.034855 _atom_sites.fract_transf_matrix[2][3] 0.013880 _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] 0.037517 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C N NA O P SR # loop_