data_6DV0 # _model_server_result.job_id a11q0x5et-CvaBUQeJc6qA _model_server_result.datetime_utc '2024-11-04 23:32:19' _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 6dv0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":503}' # _entry.id 6DV0 # _exptl.entry_id 6DV0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 90 _cell.angle_gamma 90 _cell.entry_id 6DV0 _cell.length_a 58.719 _cell.length_b 86.109 _cell.length_c 46.193 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DV0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 O ASP 60 A ASP 60 1_555 C NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc2 C NA NA . A NA 501 1_555 H O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc3 C NA NA . A NA 501 1_555 H O HOH . A HOH 624 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc4 C NA NA . A NA 501 1_555 H O HOH . A HOH 630 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc5 C NA NA . A NA 501 1_555 H O HOH . A HOH 644 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc6 C NA NA . A NA 501 1_555 H O HOH . A HOH 646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 227 n n C1 C2 GOL sing 228 n n C1 H11 GOL sing 229 n n C1 H12 GOL sing 230 n n O1 HO1 GOL sing 231 n n C2 O2 GOL sing 232 n n C2 C3 GOL sing 233 n n C2 H2 GOL sing 234 n n O2 HO2 GOL sing 235 n n C3 O3 GOL sing 236 n n C3 H31 GOL sing 237 n n C3 H32 GOL sing 238 n n O3 HO3 GOL sing 239 n n # _atom_sites.entry_id 6DV0 _atom_sites.fract_transf_matrix[1][1] 0.01703 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011613 _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] 0.021648 _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 C 2 NA A 1 501 501 NA NA . D 3 CL A 1 502 511 CL CL . E 4 GOL A 1 503 521 GOL GOL . F 5 GA8 B 1 201 201 GA8 GA8 . G 3 CL B 1 202 512 CL CL . H 6 HOH A 1 601 1118 HOH HOH . H 6 HOH A 2 602 1200 HOH HOH . H 6 HOH A 3 603 1174 HOH HOH . H 6 HOH A 4 604 1050 HOH HOH . H 6 HOH A 5 605 1072 HOH HOH . H 6 HOH A 6 606 1198 HOH HOH . H 6 HOH A 7 607 1049 HOH HOH . H 6 HOH A 8 608 1142 HOH HOH . H 6 HOH A 9 609 1036 HOH HOH . H 6 HOH A 10 610 1004 HOH HOH . H 6 HOH A 11 611 1127 HOH HOH . H 6 HOH A 12 612 1070 HOH HOH . H 6 HOH A 13 613 1028 HOH HOH . H 6 HOH A 14 614 1071 HOH HOH . H 6 HOH A 15 615 1035 HOH HOH . H 6 HOH A 16 616 1104 HOH HOH . H 6 HOH A 17 617 1009 HOH HOH . H 6 HOH A 18 618 1177 HOH HOH . H 6 HOH A 19 619 1078 HOH HOH . H 6 HOH A 20 620 1059 HOH HOH . H 6 HOH A 21 621 1010 HOH HOH . H 6 HOH A 22 622 1012 HOH HOH . H 6 HOH A 23 623 1101 HOH HOH . H 6 HOH A 24 624 1006 HOH HOH . H 6 HOH A 25 625 1109 HOH HOH . H 6 HOH A 26 626 1020 HOH HOH . H 6 HOH A 27 627 1023 HOH HOH . H 6 HOH A 28 628 1132 HOH HOH . H 6 HOH A 29 629 1103 HOH HOH . H 6 HOH A 30 630 1003 HOH HOH . H 6 HOH A 31 631 1091 HOH HOH . H 6 HOH A 32 632 1033 HOH HOH . H 6 HOH A 33 633 1041 HOH HOH . H 6 HOH A 34 634 1136 HOH HOH . H 6 HOH A 35 635 1014 HOH HOH . H 6 HOH A 36 636 1105 HOH HOH . H 6 HOH A 37 637 1189 HOH HOH . H 6 HOH A 38 638 1151 HOH HOH . H 6 HOH A 39 639 1095 HOH HOH . H 6 HOH A 40 640 1116 HOH HOH . H 6 HOH A 41 641 1083 HOH HOH . H 6 HOH A 42 642 1080 HOH HOH . H 6 HOH A 43 643 1180 HOH HOH . H 6 HOH A 44 644 1002 HOH HOH . H 6 HOH A 45 645 1134 HOH HOH . H 6 HOH A 46 646 1005 HOH HOH . H 6 HOH A 47 647 1123 HOH HOH . H 6 HOH A 48 648 1057 HOH HOH . H 6 HOH A 49 649 1164 HOH HOH . H 6 HOH A 50 650 1202 HOH HOH . H 6 HOH A 51 651 1016 HOH HOH . H 6 HOH A 52 652 1117 HOH HOH . H 6 HOH A 53 653 1045 HOH HOH . H 6 HOH A 54 654 1026 HOH HOH . H 6 HOH A 55 655 1183 HOH HOH . H 6 HOH A 56 656 1171 HOH HOH . H 6 HOH A 57 657 1043 HOH HOH . H 6 HOH A 58 658 1169 HOH HOH . H 6 HOH A 59 659 1119 HOH HOH . H 6 HOH A 60 660 1094 HOH HOH . H 6 HOH A 61 661 1178 HOH HOH . H 6 HOH A 62 662 1021 HOH HOH . H 6 HOH A 63 663 1044 HOH HOH . H 6 HOH A 64 664 1120 HOH HOH . H 6 HOH A 65 665 1090 HOH HOH . H 6 HOH A 66 666 1194 HOH HOH . H 6 HOH A 67 667 1039 HOH HOH . H 6 HOH A 68 668 1061 HOH HOH . H 6 HOH A 69 669 1081 HOH HOH . H 6 HOH A 70 670 1159 HOH HOH . H 6 HOH A 71 671 1137 HOH HOH . H 6 HOH A 72 672 1128 HOH HOH . H 6 HOH A 73 673 1150 HOH HOH . H 6 HOH A 74 674 1181 HOH HOH . H 6 HOH A 75 675 1125 HOH HOH . H 6 HOH A 76 676 1199 HOH HOH . H 6 HOH A 77 677 1082 HOH HOH . H 6 HOH A 78 678 1122 HOH HOH . H 6 HOH A 79 679 1170 HOH HOH . H 6 HOH A 80 680 1206 HOH HOH . H 6 HOH A 81 681 1145 HOH HOH . H 6 HOH A 82 682 1126 HOH HOH . H 6 HOH A 83 683 1098 HOH HOH . H 6 HOH A 84 684 1093 HOH HOH . H 6 HOH A 85 685 1108 HOH HOH . H 6 HOH A 86 686 1110 HOH HOH . H 6 HOH A 87 687 1165 HOH HOH . H 6 HOH A 88 688 1102 HOH HOH . H 6 HOH A 89 689 1197 HOH HOH . H 6 HOH A 90 690 1107 HOH HOH . H 6 HOH A 91 691 1124 HOH HOH . H 6 HOH A 92 692 1092 HOH HOH . H 6 HOH A 93 693 1143 HOH HOH . H 6 HOH A 94 694 1106 HOH HOH . I 6 HOH B 1 301 1188 HOH HOH . I 6 HOH B 2 302 1048 HOH HOH . I 6 HOH B 3 303 1196 HOH HOH . I 6 HOH B 4 304 1112 HOH HOH . I 6 HOH B 5 305 1190 HOH HOH . I 6 HOH B 6 306 1141 HOH HOH . I 6 HOH B 7 307 1135 HOH HOH . I 6 HOH B 8 308 1144 HOH HOH . I 6 HOH B 9 309 1088 HOH HOH . I 6 HOH B 10 310 1029 HOH HOH . I 6 HOH B 11 311 1030 HOH HOH . I 6 HOH B 12 312 1027 HOH HOH . I 6 HOH B 13 313 1121 HOH HOH . I 6 HOH B 14 314 1031 HOH HOH . I 6 HOH B 15 315 1185 HOH HOH . I 6 HOH B 16 316 1147 HOH HOH . I 6 HOH B 17 317 1184 HOH HOH . I 6 HOH B 18 318 1019 HOH HOH . I 6 HOH B 19 319 1140 HOH HOH . I 6 HOH B 20 320 1053 HOH HOH . I 6 HOH B 21 321 1187 HOH HOH . I 6 HOH B 22 322 1062 HOH HOH . I 6 HOH B 23 323 1096 HOH HOH . I 6 HOH B 24 324 1079 HOH HOH . I 6 HOH B 25 325 1055 HOH HOH . I 6 HOH B 26 326 1133 HOH HOH . I 6 HOH B 27 327 1129 HOH HOH . I 6 HOH B 28 328 1001 HOH HOH . I 6 HOH B 29 329 1148 HOH HOH . I 6 HOH B 30 330 1025 HOH HOH . I 6 HOH B 31 331 1024 HOH HOH . I 6 HOH B 32 332 1058 HOH HOH . I 6 HOH B 33 333 1075 HOH HOH . I 6 HOH B 34 334 1015 HOH HOH . I 6 HOH B 35 335 1068 HOH HOH . I 6 HOH B 36 336 1085 HOH HOH . I 6 HOH B 37 337 1054 HOH HOH . I 6 HOH B 38 338 1074 HOH HOH . I 6 HOH B 39 339 1008 HOH HOH . I 6 HOH B 40 340 1047 HOH HOH . I 6 HOH B 41 341 1065 HOH HOH . I 6 HOH B 42 342 1162 HOH HOH . I 6 HOH B 43 343 1161 HOH HOH . I 6 HOH B 44 344 1089 HOH HOH . I 6 HOH B 45 345 1172 HOH HOH . I 6 HOH B 46 346 1017 HOH HOH . I 6 HOH B 47 347 1011 HOH HOH . I 6 HOH B 48 348 1201 HOH HOH . I 6 HOH B 49 349 1195 HOH HOH . I 6 HOH B 50 350 1166 HOH HOH . I 6 HOH B 51 351 1066 HOH HOH . I 6 HOH B 52 352 1013 HOH HOH . I 6 HOH B 53 353 1022 HOH HOH . I 6 HOH B 54 354 1051 HOH HOH . I 6 HOH B 55 355 1084 HOH HOH . I 6 HOH B 56 356 1099 HOH HOH . I 6 HOH B 57 357 1156 HOH HOH . I 6 HOH B 58 358 1063 HOH HOH . I 6 HOH B 59 359 1100 HOH HOH . I 6 HOH B 60 360 1111 HOH HOH . I 6 HOH B 61 361 1113 HOH HOH . I 6 HOH B 62 362 1186 HOH HOH . I 6 HOH B 63 363 1163 HOH HOH . I 6 HOH B 64 364 1076 HOH HOH . I 6 HOH B 65 365 1155 HOH HOH . I 6 HOH B 66 366 1042 HOH HOH . I 6 HOH B 67 367 1060 HOH HOH . I 6 HOH B 68 368 1205 HOH HOH . I 6 HOH B 69 369 1097 HOH HOH . I 6 HOH B 70 370 1040 HOH HOH . I 6 HOH B 71 371 1037 HOH HOH . I 6 HOH B 72 372 1115 HOH HOH . I 6 HOH B 73 373 1046 HOH HOH . I 6 HOH B 74 374 1077 HOH HOH . I 6 HOH B 75 375 1138 HOH HOH . I 6 HOH B 76 376 1064 HOH HOH . I 6 HOH B 77 377 1139 HOH HOH . I 6 HOH B 78 378 1067 HOH HOH . I 6 HOH B 79 379 1038 HOH HOH . I 6 HOH B 80 380 1173 HOH HOH . I 6 HOH B 81 381 1192 HOH HOH . I 6 HOH B 82 382 1131 HOH HOH . I 6 HOH B 83 383 1018 HOH HOH . I 6 HOH B 84 384 1007 HOH HOH . I 6 HOH B 85 385 1182 HOH HOH . I 6 HOH B 86 386 1149 HOH HOH . I 6 HOH B 87 387 1191 HOH HOH . I 6 HOH B 88 388 1130 HOH HOH . I 6 HOH B 89 389 1032 HOH HOH . I 6 HOH B 90 390 1168 HOH HOH . I 6 HOH B 91 391 1146 HOH HOH . I 6 HOH B 92 392 1086 HOH HOH . I 6 HOH B 93 393 1087 HOH HOH . I 6 HOH B 94 394 1154 HOH HOH . I 6 HOH B 95 395 1052 HOH HOH . I 6 HOH B 96 396 1034 HOH HOH . I 6 HOH B 97 397 1073 HOH HOH . I 6 HOH B 98 398 1157 HOH HOH . I 6 HOH B 99 399 1114 HOH HOH . I 6 HOH B 100 400 1152 HOH HOH . I 6 HOH B 101 401 1167 HOH HOH . I 6 HOH B 102 402 1158 HOH HOH . I 6 HOH B 103 403 1175 HOH HOH . I 6 HOH B 104 404 1153 HOH HOH . I 6 HOH B 105 405 1069 HOH HOH . I 6 HOH B 106 406 1203 HOH HOH . I 6 HOH B 107 407 1176 HOH HOH . I 6 HOH B 108 408 1179 HOH HOH . I 6 HOH B 109 409 1160 HOH HOH . I 6 HOH B 110 410 1056 HOH HOH . I 6 HOH B 111 411 1193 HOH HOH . I 6 HOH B 112 412 1204 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 C C1 GOL . . . E 4 14.421 28.707 -4.999 1 30.1 ? C1 GOL 503 A 1 HETATM 2 O O1 GOL . . . E 4 15.031 29.947 -4.652 1 23.05 ? O1 GOL 503 A 1 HETATM 3 C C2 GOL . . . E 4 15.185 28.24 -6.234 1 24.93 ? C2 GOL 503 A 1 HETATM 4 O O2 GOL . . . E 4 14.769 29.106 -7.327 1 35.61 ? O2 GOL 503 A 1 HETATM 5 C C3 GOL . . . E 4 14.54 26.865 -6.547 1 20.32 ? C3 GOL 503 A 1 HETATM 6 O O3 GOL . . . E 4 13.216 27.108 -7.041 1 34.81 ? O3 GOL 503 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #