data_5DZC # _model_server_result.job_id yw5OmsfwizJMv3LnqXJHSA _model_server_result.datetime_utc '2024-11-01 07:29:56' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5dzc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 5DZC # _exptl.entry_id 5DZC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 95.08 _cell.angle_gamma 90 _cell.entry_id 5DZC _cell.length_a 193.111 _cell.length_b 117.906 _cell.length_c 67.731 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DZC _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -5.99735 0 67.464955 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OD1 ASN 663 A ASN 662 1_555 G NA NA . A NA 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc2 B O1G ANP . A ANP 1001 1_555 G NA NA . A NA 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc3 B O2A ANP . A ANP 1001 1_555 G NA NA . A NA 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 5DZC _atom_sites.fract_transf_matrix[1][1] 0.005178 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00046 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008481 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014822 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code B 2 ANP A 1 1001 1001 ANP ANP . C 3 UNX A 1 1002 1004 UNX UNX . D 4 CL A 1 1003 1005 CL CL . E 4 CL A 1 1004 1006 CL CL . F 4 CL A 1 1005 1007 CL CL . G 5 NA A 1 1006 1 NA NA . H 3 UNX A 1 1007 2 UNX UNX . I 3 UNX A 1 1008 3 UNX UNX . J 3 UNX A 1 1009 4 UNX UNX . K 3 UNX A 1 1010 5 UNX UNX . L 3 UNX A 1 1011 6 UNX UNX . M 3 UNX A 1 1012 7 UNX UNX . N 6 HOH A 1 1101 61 HOH HOH . N 6 HOH A 2 1102 1048 HOH HOH . N 6 HOH A 3 1103 11 HOH HOH . N 6 HOH A 4 1104 1075 HOH HOH . N 6 HOH A 5 1105 52 HOH HOH . N 6 HOH A 6 1106 37 HOH HOH . N 6 HOH A 7 1107 1089 HOH HOH . N 6 HOH A 8 1108 86 HOH HOH . N 6 HOH A 9 1109 1032 HOH HOH . N 6 HOH A 10 1110 93 HOH HOH . N 6 HOH A 11 1111 89 HOH HOH . N 6 HOH A 12 1112 1068 HOH HOH . N 6 HOH A 13 1113 91 HOH HOH . N 6 HOH A 14 1114 1101 HOH HOH . N 6 HOH A 15 1115 1121 HOH HOH . N 6 HOH A 16 1116 1118 HOH HOH . N 6 HOH A 17 1117 1100 HOH HOH . N 6 HOH A 18 1118 114 HOH HOH . N 6 HOH A 19 1119 90 HOH HOH . N 6 HOH A 20 1120 1127 HOH HOH . N 6 HOH A 21 1121 51 HOH HOH . N 6 HOH A 22 1122 60 HOH HOH . N 6 HOH A 23 1123 1104 HOH HOH . N 6 HOH A 24 1124 1125 HOH HOH . N 6 HOH A 25 1125 1025 HOH HOH . N 6 HOH A 26 1126 82 HOH HOH . N 6 HOH A 27 1127 1092 HOH HOH . N 6 HOH A 28 1128 14 HOH HOH . N 6 HOH A 29 1129 1065 HOH HOH . N 6 HOH A 30 1130 1027 HOH HOH . N 6 HOH A 31 1131 1037 HOH HOH . N 6 HOH A 32 1132 53 HOH HOH . N 6 HOH A 33 1133 78 HOH HOH . N 6 HOH A 34 1134 23 HOH HOH . N 6 HOH A 35 1135 1133 HOH HOH . N 6 HOH A 36 1136 77 HOH HOH . N 6 HOH A 37 1137 1055 HOH HOH . N 6 HOH A 38 1138 70 HOH HOH . N 6 HOH A 39 1139 105 HOH HOH . N 6 HOH A 40 1140 1140 HOH HOH . N 6 HOH A 41 1141 72 HOH HOH . N 6 HOH A 42 1142 63 HOH HOH . N 6 HOH A 43 1143 1122 HOH HOH . N 6 HOH A 44 1144 49 HOH HOH . N 6 HOH A 45 1145 75 HOH HOH . N 6 HOH A 46 1146 116 HOH HOH . N 6 HOH A 47 1147 1096 HOH HOH . N 6 HOH A 48 1148 1123 HOH HOH . N 6 HOH A 49 1149 1077 HOH HOH . N 6 HOH A 50 1150 1076 HOH HOH . N 6 HOH A 51 1151 33 HOH HOH . N 6 HOH A 52 1152 54 HOH HOH . N 6 HOH A 53 1153 1097 HOH HOH . N 6 HOH A 54 1154 1039 HOH HOH . N 6 HOH A 55 1155 1054 HOH HOH . N 6 HOH A 56 1156 1119 HOH HOH . N 6 HOH A 57 1157 92 HOH HOH . N 6 HOH A 58 1158 1035 HOH HOH . N 6 HOH A 59 1159 64 HOH HOH . N 6 HOH A 60 1160 1033 HOH HOH . N 6 HOH A 61 1161 1110 HOH HOH . N 6 HOH A 62 1162 32 HOH HOH . N 6 HOH A 63 1163 13 HOH HOH . N 6 HOH A 64 1164 1060 HOH HOH . N 6 HOH A 65 1165 83 HOH HOH . N 6 HOH A 66 1166 108 HOH HOH . N 6 HOH A 67 1167 1022 HOH HOH . N 6 HOH A 68 1168 1026 HOH HOH . N 6 HOH A 69 1169 1107 HOH HOH . N 6 HOH A 70 1170 1038 HOH HOH . N 6 HOH A 71 1171 1061 HOH HOH . N 6 HOH A 72 1172 71 HOH HOH . N 6 HOH A 73 1173 7 HOH HOH . N 6 HOH A 74 1174 1093 HOH HOH . N 6 HOH A 75 1175 117 HOH HOH . N 6 HOH A 76 1176 46 HOH HOH . N 6 HOH A 77 1177 1088 HOH HOH . N 6 HOH A 78 1178 1132 HOH HOH . N 6 HOH A 79 1179 1053 HOH HOH . N 6 HOH A 80 1180 1129 HOH HOH . N 6 HOH A 81 1181 1112 HOH HOH . N 6 HOH A 82 1182 34 HOH HOH . N 6 HOH A 83 1183 1044 HOH HOH . N 6 HOH A 84 1184 76 HOH HOH . N 6 HOH A 85 1185 1109 HOH HOH . N 6 HOH A 86 1186 1020 HOH HOH . N 6 HOH A 87 1187 47 HOH HOH . N 6 HOH A 88 1188 1139 HOH HOH . N 6 HOH A 89 1189 1056 HOH HOH . N 6 HOH A 90 1190 79 HOH HOH . N 6 HOH A 91 1191 1131 HOH HOH . N 6 HOH A 92 1192 1057 HOH HOH . N 6 HOH A 93 1193 1128 HOH HOH . N 6 HOH A 94 1194 26 HOH HOH . N 6 HOH A 95 1195 1115 HOH HOH . N 6 HOH A 96 1196 1094 HOH HOH . N 6 HOH A 97 1197 1074 HOH HOH . N 6 HOH A 98 1198 1042 HOH HOH . N 6 HOH A 99 1199 1029 HOH HOH . N 6 HOH A 100 1200 80 HOH HOH . N 6 HOH A 101 1201 3 HOH HOH . N 6 HOH A 102 1202 1124 HOH HOH . N 6 HOH A 103 1203 1045 HOH HOH . N 6 HOH A 104 1204 1080 HOH HOH . N 6 HOH A 105 1205 1099 HOH HOH . N 6 HOH A 106 1206 87 HOH HOH . N 6 HOH A 107 1207 1052 HOH HOH . N 6 HOH A 108 1208 1021 HOH HOH . N 6 HOH A 109 1209 107 HOH HOH . N 6 HOH A 110 1210 57 HOH HOH . N 6 HOH A 111 1211 1067 HOH HOH . N 6 HOH A 112 1212 1095 HOH HOH . N 6 HOH A 113 1213 111 HOH HOH . N 6 HOH A 114 1214 1137 HOH HOH . N 6 HOH A 115 1215 29 HOH HOH . N 6 HOH A 116 1216 102 HOH HOH . N 6 HOH A 117 1217 68 HOH HOH . N 6 HOH A 118 1218 18 HOH HOH . N 6 HOH A 119 1219 16 HOH HOH . N 6 HOH A 120 1220 1098 HOH HOH . N 6 HOH A 121 1221 1102 HOH HOH . N 6 HOH A 122 1222 1126 HOH HOH . N 6 HOH A 123 1223 106 HOH HOH . N 6 HOH A 124 1224 19 HOH HOH . N 6 HOH A 125 1225 6 HOH HOH . N 6 HOH A 126 1226 40 HOH HOH . N 6 HOH A 127 1227 112 HOH HOH . N 6 HOH A 128 1228 10 HOH HOH . N 6 HOH A 129 1229 1066 HOH HOH . N 6 HOH A 130 1230 8 HOH HOH . N 6 HOH A 131 1231 110 HOH HOH . N 6 HOH A 132 1232 109 HOH HOH . N 6 HOH A 133 1233 56 HOH HOH . N 6 HOH A 134 1234 1043 HOH HOH . N 6 HOH A 135 1235 1023 HOH HOH . N 6 HOH A 136 1236 1117 HOH HOH . N 6 HOH A 137 1237 1 HOH HOH . N 6 HOH A 138 1238 118 HOH HOH . N 6 HOH A 139 1239 35 HOH HOH . N 6 HOH A 140 1240 1064 HOH HOH . N 6 HOH A 141 1241 101 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PG ANP . . . B 2 -23.377 63.715 37.317 1 100.56 ? PG ANP 1001 A 1 HETATM 2 O O1G ANP . . . B 2 -24.42 63.461 36.335 1 99.49 ? O1G ANP 1001 A 1 HETATM 3 O O2G ANP . . . B 2 -23.611 65.13 37.994 1 95.28 ? O2G ANP 1001 A 1 HETATM 4 O O3G ANP . . . B 2 -23.445 62.589 38.437 1 98.13 ? O3G ANP 1001 A 1 HETATM 5 P PB ANP . . . B 2 -21.476 63.798 35.059 1 97.58 ? PB ANP 1001 A 1 HETATM 6 O O1B ANP . . . B 2 -22.078 62.537 34.342 1 92.63 ? O1B ANP 1001 A 1 HETATM 7 O O2B ANP . . . B 2 -20.037 63.801 34.857 1 100.53 ? O2B ANP 1001 A 1 HETATM 8 N N3B ANP . . . B 2 -21.894 63.691 36.631 1 98.25 ? N3B ANP 1001 A 1 HETATM 9 P PA ANP . . . B 2 -23.453 65.362 33.595 1 95 ? PA ANP 1001 A 1 HETATM 10 O O1A ANP . . . B 2 -23.088 65.258 32.123 1 95.96 ? O1A ANP 1001 A 1 HETATM 11 O O2A ANP . . . B 2 -24.506 64.364 33.935 1 91.59 ? O2A ANP 1001 A 1 HETATM 12 O O3A ANP . . . B 2 -22.127 65.095 34.438 1 95.35 ? O3A ANP 1001 A 1 HETATM 13 O O5' ANP . . . B 2 -23.848 66.874 33.902 1 86.63 ? O5' ANP 1001 A 1 HETATM 14 C C5' ANP . . . B 2 -23.889 67.359 35.259 1 82.25 ? C5' ANP 1001 A 1 HETATM 15 C C4' ANP . . . B 2 -25.186 68.079 35.525 1 77.82 ? C4' ANP 1001 A 1 HETATM 16 O O4' ANP . . . B 2 -25.168 69.353 34.854 1 74.78 ? O4' ANP 1001 A 1 HETATM 17 C C3' ANP . . . B 2 -26.458 67.403 35.031 1 76.93 ? C3' ANP 1001 A 1 HETATM 18 O O3' ANP . . . B 2 -26.921 66.408 35.935 1 81.35 ? O3' ANP 1001 A 1 HETATM 19 C C2' ANP . . . B 2 -27.419 68.586 34.919 1 74.86 ? C2' ANP 1001 A 1 HETATM 20 O O2' ANP . . . B 2 -28.039 68.941 36.148 1 73.13 ? O2' ANP 1001 A 1 HETATM 21 C C1' ANP . . . B 2 -26.48 69.699 34.445 1 74.79 ? C1' ANP 1001 A 1 HETATM 22 N N9 ANP . . . B 2 -26.485 69.885 32.998 1 73.78 ? N9 ANP 1001 A 1 HETATM 23 C C8 ANP . . . B 2 -25.688 69.275 32.063 1 71.65 ? C8 ANP 1001 A 1 HETATM 24 N N7 ANP . . . B 2 -25.934 69.642 30.828 1 71.5 ? N7 ANP 1001 A 1 HETATM 25 C C5 ANP . . . B 2 -26.968 70.556 30.958 1 72.17 ? C5 ANP 1001 A 1 HETATM 26 C C6 ANP . . . B 2 -27.691 71.311 30.015 1 71.36 ? C6 ANP 1001 A 1 HETATM 27 N N6 ANP . . . B 2 -27.474 71.256 28.701 1 72.56 ? N6 ANP 1001 A 1 HETATM 28 N N1 ANP . . . B 2 -28.656 72.139 30.478 1 71.96 ? N1 ANP 1001 A 1 HETATM 29 C C2 ANP . . . B 2 -28.87 72.2 31.798 1 69.87 ? C2 ANP 1001 A 1 HETATM 30 N N3 ANP . . . B 2 -28.266 71.522 32.778 1 69.34 ? N3 ANP 1001 A 1 HETATM 31 C C4 ANP . . . B 2 -27.317 70.717 32.291 1 71.05 ? C4 ANP 1001 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #