data_5LMK # _model_server_result.job_id EjK4N4QSu8vs7ufl4VUUXg _model_server_result.datetime_utc '2024-11-28 16:22:06' _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 5lmk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 5LMK # _exptl.entry_id 5LMK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 108.159 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description MONOTHIOGLYCEROL _entity.pdbx_number_of_molecules 2 _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 5LMK _cell.length_a 74.466 _cell.length_b 134.395 _cell.length_c 149.481 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LMK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,J,K 1 1 C,D,H,I,L,M 2 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 ? 5 F N N ? 5 I 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 covale ? covale1 A C TYR 160 A TYR 159 1_555 A N TPO 161 A TPO 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale2 A C TPO 161 A TPO 160 1_555 A N HIS 162 A HIS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 C C TYR 160 C TYR 159 1_555 C N TPO 161 C TPO 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale4 C C TPO 161 C TPO 160 1_555 C N HIS 162 C HIS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 B O MET 26 B MET 200 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? metalc ? metalc2 B O GLN 29 B GLN 203 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc3 B O ILE 32 B ILE 206 1_555 G MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? # _chem_comp.formula 'C3 H8 O2 S' _chem_comp.formula_weight 108.159 _chem_comp.id SGM _chem_comp.mon_nstd_flag . _chem_comp.name MONOTHIOGLYCEROL _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 C1 C2 SGM sing 346 n n C1 S1 SGM sing 347 n n C1 H11 SGM sing 348 n n C1 H12 SGM sing 349 n n C2 O2 SGM sing 350 n n C2 C3 SGM sing 351 n n C2 H2 SGM sing 352 n n O2 HO2 SGM sing 353 n n C3 O3 SGM sing 354 n n C3 H31 SGM sing 355 n n C3 H32 SGM sing 356 n n O3 HO3 SGM sing 357 n n S1 HS1 SGM sing 358 n n # _atom_sites.entry_id 5LMK _atom_sites.fract_transf_matrix[1][1] 0.013429 _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] 0.007441 _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] 0.00669 _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 E 4 6ZK A 1 301 1 6ZK MP . F 5 SGM B 1 501 4 SGM SGM . G 6 MG B 1 502 1 MG MG . H 4 6ZK C 1 301 1 6ZK MP . I 5 SGM D 1 501 3 SGM SGM . J 7 HOH A 1 401 13 HOH HOH . J 7 HOH A 2 402 207 HOH HOH . J 7 HOH A 3 403 15 HOH HOH . J 7 HOH A 4 404 201 HOH HOH . J 7 HOH A 5 405 41 HOH HOH . J 7 HOH A 6 406 213 HOH HOH . J 7 HOH A 7 407 234 HOH HOH . J 7 HOH A 8 408 26 HOH HOH . J 7 HOH A 9 409 186 HOH HOH . J 7 HOH A 10 410 206 HOH HOH . J 7 HOH A 11 411 197 HOH HOH . J 7 HOH A 12 412 125 HOH HOH . J 7 HOH A 13 413 140 HOH HOH . J 7 HOH A 14 414 29 HOH HOH . J 7 HOH A 15 415 86 HOH HOH . J 7 HOH A 16 416 17 HOH HOH . J 7 HOH A 17 417 27 HOH HOH . J 7 HOH A 18 418 113 HOH HOH . J 7 HOH A 19 419 153 HOH HOH . J 7 HOH A 20 420 124 HOH HOH . J 7 HOH A 21 421 211 HOH HOH . J 7 HOH A 22 422 93 HOH HOH . J 7 HOH A 23 423 107 HOH HOH . J 7 HOH A 24 424 180 HOH HOH . J 7 HOH A 25 425 108 HOH HOH . J 7 HOH A 26 426 168 HOH HOH . J 7 HOH A 27 427 66 HOH HOH . J 7 HOH A 28 428 49 HOH HOH . J 7 HOH A 29 429 110 HOH HOH . J 7 HOH A 30 430 6 HOH HOH . J 7 HOH A 31 431 77 HOH HOH . J 7 HOH A 32 432 198 HOH HOH . J 7 HOH A 33 433 7 HOH HOH . J 7 HOH A 34 434 81 HOH HOH . J 7 HOH A 35 435 85 HOH HOH . J 7 HOH A 36 436 143 HOH HOH . J 7 HOH A 37 437 18 HOH HOH . J 7 HOH A 38 438 34 HOH HOH . J 7 HOH A 39 439 224 HOH HOH . J 7 HOH A 40 440 57 HOH HOH . J 7 HOH A 41 441 1 HOH HOH . J 7 HOH A 42 442 95 HOH HOH . J 7 HOH A 43 443 230 HOH HOH . J 7 HOH A 44 444 188 HOH HOH . J 7 HOH A 45 445 62 HOH HOH . J 7 HOH A 46 446 106 HOH HOH . J 7 HOH A 47 447 35 HOH HOH . J 7 HOH A 48 448 115 HOH HOH . J 7 HOH A 49 449 147 HOH HOH . J 7 HOH A 50 450 141 HOH HOH . J 7 HOH A 51 451 83 HOH HOH . J 7 HOH A 52 452 225 HOH HOH . J 7 HOH A 53 453 194 HOH HOH . J 7 HOH A 54 454 158 HOH HOH . J 7 HOH A 55 455 21 HOH HOH . J 7 HOH A 56 456 129 HOH HOH . J 7 HOH A 57 457 159 HOH HOH . J 7 HOH A 58 458 130 HOH HOH . J 7 HOH A 59 459 45 HOH HOH . J 7 HOH A 60 460 92 HOH HOH . J 7 HOH A 61 461 200 HOH HOH . J 7 HOH A 62 462 199 HOH HOH . J 7 HOH A 63 463 111 HOH HOH . J 7 HOH A 64 464 5 HOH HOH . J 7 HOH A 65 465 55 HOH HOH . J 7 HOH A 66 466 132 HOH HOH . J 7 HOH A 67 467 146 HOH HOH . J 7 HOH A 68 468 47 HOH HOH . J 7 HOH A 69 469 134 HOH HOH . J 7 HOH A 70 470 238 HOH HOH . J 7 HOH A 71 471 99 HOH HOH . J 7 HOH A 72 472 142 HOH HOH . J 7 HOH A 73 473 75 HOH HOH . J 7 HOH A 74 474 58 HOH HOH . J 7 HOH A 75 475 220 HOH HOH . J 7 HOH A 76 476 243 HOH HOH . J 7 HOH A 77 477 25 HOH HOH . J 7 HOH A 78 478 192 HOH HOH . J 7 HOH A 79 479 222 HOH HOH . J 7 HOH A 80 480 59 HOH HOH . J 7 HOH A 81 481 195 HOH HOH . J 7 HOH A 82 482 102 HOH HOH . J 7 HOH A 83 483 152 HOH HOH . J 7 HOH A 84 484 172 HOH HOH . J 7 HOH A 85 485 231 HOH HOH . K 7 HOH B 1 601 216 HOH HOH . K 7 HOH B 2 602 191 HOH HOH . K 7 HOH B 3 603 53 HOH HOH . K 7 HOH B 4 604 128 HOH HOH . K 7 HOH B 5 605 133 HOH HOH . K 7 HOH B 6 606 202 HOH HOH . K 7 HOH B 7 607 228 HOH HOH . K 7 HOH B 8 608 118 HOH HOH . K 7 HOH B 9 609 43 HOH HOH . K 7 HOH B 10 610 136 HOH HOH . K 7 HOH B 11 611 242 HOH HOH . K 7 HOH B 12 612 96 HOH HOH . K 7 HOH B 13 613 48 HOH HOH . K 7 HOH B 14 614 50 HOH HOH . K 7 HOH B 15 615 127 HOH HOH . K 7 HOH B 16 616 208 HOH HOH . K 7 HOH B 17 617 160 HOH HOH . K 7 HOH B 18 618 233 HOH HOH . K 7 HOH B 19 619 8 HOH HOH . K 7 HOH B 20 620 126 HOH HOH . K 7 HOH B 21 621 54 HOH HOH . K 7 HOH B 22 622 135 HOH HOH . K 7 HOH B 23 623 139 HOH HOH . K 7 HOH B 24 624 3 HOH HOH . K 7 HOH B 25 625 226 HOH HOH . K 7 HOH B 26 626 217 HOH HOH . K 7 HOH B 27 627 137 HOH HOH . K 7 HOH B 28 628 101 HOH HOH . K 7 HOH B 29 629 98 HOH HOH . K 7 HOH B 30 630 14 HOH HOH . K 7 HOH B 31 631 105 HOH HOH . K 7 HOH B 32 632 156 HOH HOH . K 7 HOH B 33 633 145 HOH HOH . K 7 HOH B 34 634 157 HOH HOH . K 7 HOH B 35 635 181 HOH HOH . K 7 HOH B 36 636 100 HOH HOH . K 7 HOH B 37 637 123 HOH HOH . K 7 HOH B 38 638 154 HOH HOH . K 7 HOH B 39 639 64 HOH HOH . K 7 HOH B 40 640 71 HOH HOH . K 7 HOH B 41 641 82 HOH HOH . K 7 HOH B 42 642 60 HOH HOH . K 7 HOH B 43 643 19 HOH HOH . K 7 HOH B 44 644 219 HOH HOH . K 7 HOH B 45 645 10 HOH HOH . K 7 HOH B 46 646 61 HOH HOH . K 7 HOH B 47 647 11 HOH HOH . K 7 HOH B 48 648 161 HOH HOH . K 7 HOH B 49 649 84 HOH HOH . K 7 HOH B 50 650 56 HOH HOH . K 7 HOH B 51 651 204 HOH HOH . K 7 HOH B 52 652 9 HOH HOH . K 7 HOH B 53 653 65 HOH HOH . K 7 HOH B 54 654 30 HOH HOH . K 7 HOH B 55 655 51 HOH HOH . K 7 HOH B 56 656 12 HOH HOH . K 7 HOH B 57 657 37 HOH HOH . K 7 HOH B 58 658 131 HOH HOH . K 7 HOH B 59 659 39 HOH HOH . K 7 HOH B 60 660 209 HOH HOH . K 7 HOH B 61 661 74 HOH HOH . K 7 HOH B 62 662 166 HOH HOH . K 7 HOH B 63 663 68 HOH HOH . K 7 HOH B 64 664 229 HOH HOH . K 7 HOH B 65 665 46 HOH HOH . K 7 HOH B 66 666 203 HOH HOH . K 7 HOH B 67 667 177 HOH HOH . K 7 HOH B 68 668 232 HOH HOH . K 7 HOH B 69 669 227 HOH HOH . K 7 HOH B 70 670 215 HOH HOH . K 7 HOH B 71 671 193 HOH HOH . K 7 HOH B 72 672 235 HOH HOH . K 7 HOH B 73 673 214 HOH HOH . L 7 HOH C 1 401 210 HOH HOH . L 7 HOH C 2 402 80 HOH HOH . L 7 HOH C 3 403 44 HOH HOH . L 7 HOH C 4 404 190 HOH HOH . L 7 HOH C 5 405 184 HOH HOH . L 7 HOH C 6 406 237 HOH HOH . L 7 HOH C 7 407 187 HOH HOH . L 7 HOH C 8 408 63 HOH HOH . L 7 HOH C 9 409 89 HOH HOH . L 7 HOH C 10 410 162 HOH HOH . L 7 HOH C 11 411 212 HOH HOH . L 7 HOH C 12 412 24 HOH HOH . L 7 HOH C 13 413 170 HOH HOH . L 7 HOH C 14 414 76 HOH HOH . L 7 HOH C 15 415 112 HOH HOH . L 7 HOH C 16 416 114 HOH HOH . L 7 HOH C 17 417 163 HOH HOH . L 7 HOH C 18 418 72 HOH HOH . L 7 HOH C 19 419 116 HOH HOH . L 7 HOH C 20 420 23 HOH HOH . L 7 HOH C 21 421 40 HOH HOH . L 7 HOH C 22 422 32 HOH HOH . L 7 HOH C 23 423 171 HOH HOH . L 7 HOH C 24 424 67 HOH HOH . L 7 HOH C 25 425 196 HOH HOH . L 7 HOH C 26 426 239 HOH HOH . L 7 HOH C 27 427 4 HOH HOH . L 7 HOH C 28 428 16 HOH HOH . L 7 HOH C 29 429 20 HOH HOH . L 7 HOH C 30 430 28 HOH HOH . L 7 HOH C 31 431 148 HOH HOH . L 7 HOH C 32 432 38 HOH HOH . L 7 HOH C 33 433 144 HOH HOH . L 7 HOH C 34 434 91 HOH HOH . L 7 HOH C 35 435 104 HOH HOH . L 7 HOH C 36 436 218 HOH HOH . L 7 HOH C 37 437 175 HOH HOH . L 7 HOH C 38 438 164 HOH HOH . L 7 HOH C 39 439 182 HOH HOH . L 7 HOH C 40 440 2 HOH HOH . L 7 HOH C 41 441 241 HOH HOH . L 7 HOH C 42 442 179 HOH HOH . L 7 HOH C 43 443 240 HOH HOH . M 7 HOH D 1 601 155 HOH HOH . M 7 HOH D 2 602 223 HOH HOH . M 7 HOH D 3 603 78 HOH HOH . M 7 HOH D 4 604 79 HOH HOH . M 7 HOH D 5 605 165 HOH HOH . M 7 HOH D 6 606 88 HOH HOH . M 7 HOH D 7 607 178 HOH HOH . M 7 HOH D 8 608 36 HOH HOH . M 7 HOH D 9 609 169 HOH HOH . M 7 HOH D 10 610 117 HOH HOH . M 7 HOH D 11 611 205 HOH HOH . M 7 HOH D 12 612 103 HOH HOH . M 7 HOH D 13 613 87 HOH HOH . M 7 HOH D 14 614 97 HOH HOH . M 7 HOH D 15 615 31 HOH HOH . M 7 HOH D 16 616 149 HOH HOH . M 7 HOH D 17 617 22 HOH HOH . M 7 HOH D 18 618 52 HOH HOH . M 7 HOH D 19 619 69 HOH HOH . M 7 HOH D 20 620 185 HOH HOH . M 7 HOH D 21 621 73 HOH HOH . M 7 HOH D 22 622 173 HOH HOH . M 7 HOH D 23 623 167 HOH HOH . M 7 HOH D 24 624 236 HOH HOH . M 7 HOH D 25 625 33 HOH HOH . M 7 HOH D 26 626 189 HOH HOH . M 7 HOH D 27 627 120 HOH HOH . M 7 HOH D 28 628 174 HOH HOH . M 7 HOH D 29 629 119 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 SGM . . . F 5 -25.313 6.684 -10.664 1 39.06 ? C1 SGM 501 B 1 HETATM 2 C C2 SGM . . . F 5 -25.336 7.922 -11.559 1 40.87 ? C2 SGM 501 B 1 HETATM 3 O O2 SGM . . . F 5 -24.859 9.086 -10.865 1 40.43 ? O2 SGM 501 B 1 HETATM 4 C C3 SGM . . . F 5 -26.754 8.163 -12.055 1 41.62 ? C3 SGM 501 B 1 HETATM 5 O O3 SGM . . . F 5 -26.773 9.407 -12.766 1 45.84 ? O3 SGM 501 B 1 HETATM 6 S S1 SGM . . . F 5 -24.003 6.705 -9.406 1 37.05 ? S1 SGM 501 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #