data_6DIF
#
_model_server_result.job_id            qm9OiJoNwl6oG1eB2m1-4w 
_model_server_result.datetime_utc      '2024-11-18 12:37:52' 
_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          6dif 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":504}' 
#
_entry.id    6DIF 
#
_exptl.entry_id    6DIF 
_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    3 
_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            6DIF 
_cell.length_a            58.3 
_cell.length_b            86.259 
_cell.length_c            46.005 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6DIF 
_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,J,K,L 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 F N N 
? 4 I N N 
? 4 J N 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
metalc ? metalc2 C NA NA . A NA 501 1_555 K O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
metalc ? metalc3 C NA NA . A NA 501 1_555 K O HOH . A HOH 632 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc4 C NA NA . A NA 501 1_555 K O HOH . A HOH 646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc5 C NA NA . A NA 501 1_555 K O HOH . A HOH 662 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc6 C NA NA . A NA 501 1_555 K O HOH . A HOH 680 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? 
#
_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 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     6DIF 
_atom_sites.fract_transf_matrix[1][1]    0.017153 
_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]    0.011593 
_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]    0.021737 
_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 3 CL A 1 503 512 CL CL . 
F 4 GOL A 1 504 522 GOL GOL . 
G 5 TPV B 1 201 201 TPV TPV . 
H 3 CL B 1 202 513 CL CL . 
I 4 GOL B 1 203 521 GOL GOL . 
J 4 GOL B 1 204 523 GOL GOL . 
K 6 HOH A 1 601 1004 HOH HOH . 
K 6 HOH A 2 602 1125 HOH HOH . 
K 6 HOH A 3 603 1104 HOH HOH . 
K 6 HOH A 4 604 1113 HOH HOH . 
K 6 HOH A 5 605 1059 HOH HOH . 
K 6 HOH A 6 606 1091 HOH HOH . 
K 6 HOH A 7 607 1056 HOH HOH . 
K 6 HOH A 8 608 1065 HOH HOH . 
K 6 HOH A 9 609 1133 HOH HOH . 
K 6 HOH A 10 610 1142 HOH HOH . 
K 6 HOH A 11 611 1136 HOH HOH . 
K 6 HOH A 12 612 1005 HOH HOH . 
K 6 HOH A 13 613 1086 HOH HOH . 
K 6 HOH A 14 614 1171 HOH HOH . 
K 6 HOH A 15 615 1168 HOH HOH . 
K 6 HOH A 16 616 1006 HOH HOH . 
K 6 HOH A 17 617 1180 HOH HOH . 
K 6 HOH A 18 618 1162 HOH HOH . 
K 6 HOH A 19 619 1057 HOH HOH . 
K 6 HOH A 20 620 1198 HOH HOH . 
K 6 HOH A 21 621 1166 HOH HOH . 
K 6 HOH A 22 622 1150 HOH HOH . 
K 6 HOH A 23 623 1011 HOH HOH . 
K 6 HOH A 24 624 1002 HOH HOH . 
K 6 HOH A 25 625 1060 HOH HOH . 
K 6 HOH A 26 626 1177 HOH HOH . 
K 6 HOH A 27 627 1105 HOH HOH . 
K 6 HOH A 28 628 1102 HOH HOH . 
K 6 HOH A 29 629 1067 HOH HOH . 
K 6 HOH A 30 630 1045 HOH HOH . 
K 6 HOH A 31 631 1189 HOH HOH . 
K 6 HOH A 32 632 1030 HOH HOH . 
K 6 HOH A 33 633 1076 HOH HOH . 
K 6 HOH A 34 634 1018 HOH HOH . 
K 6 HOH A 35 635 1050 HOH HOH . 
K 6 HOH A 36 636 1112 HOH HOH . 
K 6 HOH A 37 637 1017 HOH HOH . 
K 6 HOH A 38 638 1122 HOH HOH . 
K 6 HOH A 39 639 1182 HOH HOH . 
K 6 HOH A 40 640 1033 HOH HOH . 
K 6 HOH A 41 641 1099 HOH HOH . 
K 6 HOH A 42 642 1210 HOH HOH . 
K 6 HOH A 43 643 1201 HOH HOH . 
K 6 HOH A 44 644 1095 HOH HOH . 
K 6 HOH A 45 645 1001 HOH HOH . 
K 6 HOH A 46 646 1028 HOH HOH . 
K 6 HOH A 47 647 1031 HOH HOH . 
K 6 HOH A 48 648 1209 HOH HOH . 
K 6 HOH A 49 649 1063 HOH HOH . 
K 6 HOH A 50 650 1021 HOH HOH . 
K 6 HOH A 51 651 1114 HOH HOH . 
K 6 HOH A 52 652 1092 HOH HOH . 
K 6 HOH A 53 653 1188 HOH HOH . 
K 6 HOH A 54 654 1090 HOH HOH . 
K 6 HOH A 55 655 1140 HOH HOH . 
K 6 HOH A 56 656 1183 HOH HOH . 
K 6 HOH A 57 657 1107 HOH HOH . 
K 6 HOH A 58 658 1135 HOH HOH . 
K 6 HOH A 59 659 1208 HOH HOH . 
K 6 HOH A 60 660 1134 HOH HOH . 
K 6 HOH A 61 661 1157 HOH HOH . 
K 6 HOH A 62 662 1024 HOH HOH . 
K 6 HOH A 63 663 1207 HOH HOH . 
K 6 HOH A 64 664 1131 HOH HOH . 
K 6 HOH A 65 665 1049 HOH HOH . 
K 6 HOH A 66 666 1007 HOH HOH . 
K 6 HOH A 67 667 1127 HOH HOH . 
K 6 HOH A 68 668 1109 HOH HOH . 
K 6 HOH A 69 669 1163 HOH HOH . 
K 6 HOH A 70 670 1202 HOH HOH . 
K 6 HOH A 71 671 1037 HOH HOH . 
K 6 HOH A 72 672 1052 HOH HOH . 
K 6 HOH A 73 673 1117 HOH HOH . 
K 6 HOH A 74 674 1126 HOH HOH . 
K 6 HOH A 75 675 1034 HOH HOH . 
K 6 HOH A 76 676 1019 HOH HOH . 
K 6 HOH A 77 677 1085 HOH HOH . 
K 6 HOH A 78 678 1023 HOH HOH . 
K 6 HOH A 79 679 1175 HOH HOH . 
K 6 HOH A 80 680 1064 HOH HOH . 
K 6 HOH A 81 681 1068 HOH HOH . 
K 6 HOH A 82 682 1098 HOH HOH . 
K 6 HOH A 83 683 1009 HOH HOH . 
K 6 HOH A 84 684 1132 HOH HOH . 
K 6 HOH A 85 685 1158 HOH HOH . 
K 6 HOH A 86 686 1010 HOH HOH . 
K 6 HOH A 87 687 1108 HOH HOH . 
K 6 HOH A 88 688 1058 HOH HOH . 
K 6 HOH A 89 689 1199 HOH HOH . 
K 6 HOH A 90 690 1146 HOH HOH . 
K 6 HOH A 91 691 1161 HOH HOH . 
K 6 HOH A 92 692 1094 HOH HOH . 
K 6 HOH A 93 693 1176 HOH HOH . 
K 6 HOH A 94 694 1008 HOH HOH . 
K 6 HOH A 95 695 1200 HOH HOH . 
K 6 HOH A 96 696 1141 HOH HOH . 
K 6 HOH A 97 697 1097 HOH HOH . 
K 6 HOH A 98 698 1129 HOH HOH . 
K 6 HOH A 99 699 1153 HOH HOH . 
K 6 HOH A 100 700 1149 HOH HOH . 
K 6 HOH A 101 701 1160 HOH HOH . 
K 6 HOH A 102 702 1167 HOH HOH . 
K 6 HOH A 103 703 1193 HOH HOH . 
K 6 HOH A 104 704 1190 HOH HOH . 
L 6 HOH B 1 301 1155 HOH HOH . 
L 6 HOH B 2 302 1186 HOH HOH . 
L 6 HOH B 3 303 1120 HOH HOH . 
L 6 HOH B 4 304 1080 HOH HOH . 
L 6 HOH B 5 305 1123 HOH HOH . 
L 6 HOH B 6 306 1144 HOH HOH . 
L 6 HOH B 7 307 1159 HOH HOH . 
L 6 HOH B 8 308 1055 HOH HOH . 
L 6 HOH B 9 309 1106 HOH HOH . 
L 6 HOH B 10 310 1116 HOH HOH . 
L 6 HOH B 11 311 1044 HOH HOH . 
L 6 HOH B 12 312 1042 HOH HOH . 
L 6 HOH B 13 313 1195 HOH HOH . 
L 6 HOH B 14 314 1071 HOH HOH . 
L 6 HOH B 15 315 1020 HOH HOH . 
L 6 HOH B 16 316 1100 HOH HOH . 
L 6 HOH B 17 317 1121 HOH HOH . 
L 6 HOH B 18 318 1165 HOH HOH . 
L 6 HOH B 19 319 1026 HOH HOH . 
L 6 HOH B 20 320 1061 HOH HOH . 
L 6 HOH B 21 321 1070 HOH HOH . 
L 6 HOH B 22 322 1088 HOH HOH . 
L 6 HOH B 23 323 1046 HOH HOH . 
L 6 HOH B 24 324 1040 HOH HOH . 
L 6 HOH B 25 325 1038 HOH HOH . 
L 6 HOH B 26 326 1072 HOH HOH . 
L 6 HOH B 27 327 1081 HOH HOH . 
L 6 HOH B 28 328 1093 HOH HOH . 
L 6 HOH B 29 329 1205 HOH HOH . 
L 6 HOH B 30 330 1151 HOH HOH . 
L 6 HOH B 31 331 1003 HOH HOH . 
L 6 HOH B 32 332 1124 HOH HOH . 
L 6 HOH B 33 333 1022 HOH HOH . 
L 6 HOH B 34 334 1013 HOH HOH . 
L 6 HOH B 35 335 1048 HOH HOH . 
L 6 HOH B 36 336 1148 HOH HOH . 
L 6 HOH B 37 337 1185 HOH HOH . 
L 6 HOH B 38 338 1079 HOH HOH . 
L 6 HOH B 39 339 1078 HOH HOH . 
L 6 HOH B 40 340 1054 HOH HOH . 
L 6 HOH B 41 341 1012 HOH HOH . 
L 6 HOH B 42 342 1053 HOH HOH . 
L 6 HOH B 43 343 1041 HOH HOH . 
L 6 HOH B 44 344 1016 HOH HOH . 
L 6 HOH B 45 345 1139 HOH HOH . 
L 6 HOH B 46 346 1203 HOH HOH . 
L 6 HOH B 47 347 1087 HOH HOH . 
L 6 HOH B 48 348 1115 HOH HOH . 
L 6 HOH B 49 349 1169 HOH HOH . 
L 6 HOH B 50 350 1015 HOH HOH . 
L 6 HOH B 51 351 1147 HOH HOH . 
L 6 HOH B 52 352 1204 HOH HOH . 
L 6 HOH B 53 353 1027 HOH HOH . 
L 6 HOH B 54 354 1206 HOH HOH . 
L 6 HOH B 55 355 1156 HOH HOH . 
L 6 HOH B 56 356 1039 HOH HOH . 
L 6 HOH B 57 357 1089 HOH HOH . 
L 6 HOH B 58 358 1187 HOH HOH . 
L 6 HOH B 59 359 1077 HOH HOH . 
L 6 HOH B 60 360 1069 HOH HOH . 
L 6 HOH B 61 361 1170 HOH HOH . 
L 6 HOH B 62 362 1174 HOH HOH . 
L 6 HOH B 63 363 1130 HOH HOH . 
L 6 HOH B 64 364 1101 HOH HOH . 
L 6 HOH B 65 365 1096 HOH HOH . 
L 6 HOH B 66 366 1103 HOH HOH . 
L 6 HOH B 67 367 1074 HOH HOH . 
L 6 HOH B 68 368 1062 HOH HOH . 
L 6 HOH B 69 369 1152 HOH HOH . 
L 6 HOH B 70 370 1036 HOH HOH . 
L 6 HOH B 71 371 1154 HOH HOH . 
L 6 HOH B 72 372 1029 HOH HOH . 
L 6 HOH B 73 373 1032 HOH HOH . 
L 6 HOH B 74 374 1197 HOH HOH . 
L 6 HOH B 75 375 1173 HOH HOH . 
L 6 HOH B 76 376 1075 HOH HOH . 
L 6 HOH B 77 377 1014 HOH HOH . 
L 6 HOH B 78 378 1051 HOH HOH . 
L 6 HOH B 79 379 1145 HOH HOH . 
L 6 HOH B 80 380 1083 HOH HOH . 
L 6 HOH B 81 381 1184 HOH HOH . 
L 6 HOH B 82 382 1196 HOH HOH . 
L 6 HOH B 83 383 1194 HOH HOH . 
L 6 HOH B 84 384 1043 HOH HOH . 
L 6 HOH B 85 385 1192 HOH HOH . 
L 6 HOH B 86 386 1138 HOH HOH . 
L 6 HOH B 87 387 1110 HOH HOH . 
L 6 HOH B 88 388 1047 HOH HOH . 
L 6 HOH B 89 389 1035 HOH HOH . 
L 6 HOH B 90 390 1172 HOH HOH . 
L 6 HOH B 91 391 1143 HOH HOH . 
L 6 HOH B 92 392 1084 HOH HOH . 
L 6 HOH B 93 393 1119 HOH HOH . 
L 6 HOH B 94 394 1111 HOH HOH . 
L 6 HOH B 95 395 1128 HOH HOH . 
L 6 HOH B 96 396 1118 HOH HOH . 
L 6 HOH B 97 397 1178 HOH HOH . 
L 6 HOH B 98 398 1073 HOH HOH . 
L 6 HOH B 99 399 1137 HOH HOH . 
L 6 HOH B 100 400 1082 HOH HOH . 
L 6 HOH B 101 401 1179 HOH HOH . 
L 6 HOH B 102 402 1181 HOH HOH . 
L 6 HOH B 103 403 1066 HOH HOH . 
L 6 HOH B 104 404 1025 HOH HOH . 
L 6 HOH B 105 405 1191 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 . . . F 4 -0.832 13.435 59.756 0.5 23.6 ? C1 GOL 504 A 1 
HETATM 2 O O1 GOL . . . F 4 -1.061 12.671 58.576 0.5 13.04 ? O1 GOL 504 A 1 
HETATM 3 C C2 GOL . . . F 4 0.009 14.683 59.546 0.5 25.7 ? C2 GOL 504 A 1 
HETATM 4 O O2 GOL . . . F 4 1.309 14.6 60.14 0.5 25.57 ? O2 GOL 504 A 1 
HETATM 5 C C3 GOL . . . F 4 -0.591 15.871 60.334 0.5 26.42 ? C3 GOL 504 A 1 
HETATM 6 O O3 GOL . . . F 4 0.521 16.405 61.082 0.5 26.64 ? O3 GOL 504 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           322 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#