data_5T9B # _model_server_result.job_id 3DyWvYN4DqwZhcbKf8hDrA _model_server_result.datetime_utc '2024-11-01 05:22:15' _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 5t9b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 5T9B # _exptl.entry_id 5T9B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 172.074 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SN-GLYCEROL-3-PHOSPHATE _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 5T9B _cell.length_a 50.463 _cell.length_b 60.225 _cell.length_c 88.418 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5T9B _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id C _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 OE2 GLU 45 G GLU 70 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc2 A OD1 ASP 47 G ASP 72 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc3 A O ASP 65 G ASP 90 1_555 D NA NA . G NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc4 A O THR 68 G THR 93 1_555 D NA NA . G NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc5 A OE1 GLU 127 G GLU 152 1_555 B CA CA . G CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc6 B CA CA . G CA 301 1_555 C O2 G3P . G G3P 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc7 B CA CA . G CA 301 1_555 C O1 G3P . G G3P 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc8 B CA CA . G CA 301 1_555 E O HOH . G HOH 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc9 B CA CA . G CA 301 1_555 E O HOH . G HOH 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc10 D NA NA . G NA 303 1_555 E O HOH . G HOH 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc11 D NA NA . G NA 303 1_555 E O HOH . G HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc12 D NA NA . G NA 303 1_555 E O HOH . G HOH 539 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc13 D NA NA . G NA 303 1_555 E O HOH . G HOH 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? # _chem_comp.formula 'C3 H9 O6 P' _chem_comp.formula_weight 172.074 _chem_comp.id G3P _chem_comp.mon_nstd_flag . _chem_comp.name SN-GLYCEROL-3-PHOSPHATE _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 O1 C1 G3P sing 70 n n C1 C2 G3P sing 71 n n C2 O2 G3P sing 72 n n C2 C3 G3P sing 73 n n C3 O1P G3P sing 74 n n O1P P G3P sing 75 n n O4P P G3P sing 76 n n O2P P G3P doub 77 n n O3P P G3P sing 78 n n O1 HO1 G3P sing 79 n n C1 H11 G3P sing 80 n n C1 H12 G3P sing 81 n n C2 H2 G3P sing 82 n n O2 HO2 G3P sing 83 n n C3 H31 G3P sing 84 n n C3 H32 G3P sing 85 n n O3P HOP3 G3P sing 86 n n O4P HOP4 G3P sing 87 n n # _atom_sites.entry_id 5T9B _atom_sites.fract_transf_matrix[1][1] 0.019816 _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] 0.016604 _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] 0.01131 _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 CA G 1 301 1 CA CA . C 3 G3P G 1 302 1 G3P G3P . D 4 NA G 1 303 1 NA NA . E 5 HOH G 1 401 105 HOH HOH . E 5 HOH G 2 402 208 HOH HOH . E 5 HOH G 3 403 158 HOH HOH . E 5 HOH G 4 404 31 HOH HOH . E 5 HOH G 5 405 49 HOH HOH . E 5 HOH G 6 406 55 HOH HOH . E 5 HOH G 7 407 220 HOH HOH . E 5 HOH G 8 408 82 HOH HOH . E 5 HOH G 9 409 106 HOH HOH . E 5 HOH G 10 410 260 HOH HOH . E 5 HOH G 11 411 52 HOH HOH . E 5 HOH G 12 412 128 HOH HOH . E 5 HOH G 13 413 8 HOH HOH . E 5 HOH G 14 414 155 HOH HOH . E 5 HOH G 15 415 161 HOH HOH . E 5 HOH G 16 416 135 HOH HOH . E 5 HOH G 17 417 163 HOH HOH . E 5 HOH G 18 418 103 HOH HOH . E 5 HOH G 19 419 41 HOH HOH . E 5 HOH G 20 420 92 HOH HOH . E 5 HOH G 21 421 81 HOH HOH . E 5 HOH G 22 422 137 HOH HOH . E 5 HOH G 23 423 65 HOH HOH . E 5 HOH G 24 424 95 HOH HOH . E 5 HOH G 25 425 101 HOH HOH . E 5 HOH G 26 426 165 HOH HOH . E 5 HOH G 27 427 247 HOH HOH . E 5 HOH G 28 428 25 HOH HOH . E 5 HOH G 29 429 67 HOH HOH . E 5 HOH G 30 430 243 HOH HOH . E 5 HOH G 31 431 255 HOH HOH . E 5 HOH G 32 432 199 HOH HOH . E 5 HOH G 33 433 129 HOH HOH . E 5 HOH G 34 434 10 HOH HOH . E 5 HOH G 35 435 64 HOH HOH . E 5 HOH G 36 436 11 HOH HOH . E 5 HOH G 37 437 35 HOH HOH . E 5 HOH G 38 438 167 HOH HOH . E 5 HOH G 39 439 14 HOH HOH . E 5 HOH G 40 440 154 HOH HOH . E 5 HOH G 41 441 9 HOH HOH . E 5 HOH G 42 442 108 HOH HOH . E 5 HOH G 43 443 48 HOH HOH . E 5 HOH G 44 444 17 HOH HOH . E 5 HOH G 45 445 253 HOH HOH . E 5 HOH G 46 446 100 HOH HOH . E 5 HOH G 47 447 86 HOH HOH . E 5 HOH G 48 448 73 HOH HOH . E 5 HOH G 49 449 76 HOH HOH . E 5 HOH G 50 450 23 HOH HOH . E 5 HOH G 51 451 36 HOH HOH . E 5 HOH G 52 452 248 HOH HOH . E 5 HOH G 53 453 28 HOH HOH . E 5 HOH G 54 454 171 HOH HOH . E 5 HOH G 55 455 54 HOH HOH . E 5 HOH G 56 456 46 HOH HOH . E 5 HOH G 57 457 21 HOH HOH . E 5 HOH G 58 458 78 HOH HOH . E 5 HOH G 59 459 79 HOH HOH . E 5 HOH G 60 460 33 HOH HOH . E 5 HOH G 61 461 109 HOH HOH . E 5 HOH G 62 462 53 HOH HOH . E 5 HOH G 63 463 74 HOH HOH . E 5 HOH G 64 464 40 HOH HOH . E 5 HOH G 65 465 133 HOH HOH . E 5 HOH G 66 466 1 HOH HOH . E 5 HOH G 67 467 43 HOH HOH . E 5 HOH G 68 468 32 HOH HOH . E 5 HOH G 69 469 24 HOH HOH . E 5 HOH G 70 470 5 HOH HOH . E 5 HOH G 71 471 30 HOH HOH . E 5 HOH G 72 472 2 HOH HOH . E 5 HOH G 73 473 117 HOH HOH . E 5 HOH G 74 474 180 HOH HOH . E 5 HOH G 75 475 121 HOH HOH . E 5 HOH G 76 476 186 HOH HOH . E 5 HOH G 77 477 246 HOH HOH . E 5 HOH G 78 478 242 HOH HOH . E 5 HOH G 79 479 71 HOH HOH . E 5 HOH G 80 480 39 HOH HOH . E 5 HOH G 81 481 63 HOH HOH . E 5 HOH G 82 482 114 HOH HOH . E 5 HOH G 83 483 130 HOH HOH . E 5 HOH G 84 484 16 HOH HOH . E 5 HOH G 85 485 59 HOH HOH . E 5 HOH G 86 486 6 HOH HOH . E 5 HOH G 87 487 120 HOH HOH . E 5 HOH G 88 488 126 HOH HOH . E 5 HOH G 89 489 131 HOH HOH . E 5 HOH G 90 490 61 HOH HOH . E 5 HOH G 91 491 91 HOH HOH . E 5 HOH G 92 492 27 HOH HOH . E 5 HOH G 93 493 85 HOH HOH . E 5 HOH G 94 494 104 HOH HOH . E 5 HOH G 95 495 177 HOH HOH . E 5 HOH G 96 496 244 HOH HOH . E 5 HOH G 97 497 18 HOH HOH . E 5 HOH G 98 498 80 HOH HOH . E 5 HOH G 99 499 15 HOH HOH . E 5 HOH G 100 500 123 HOH HOH . E 5 HOH G 101 501 37 HOH HOH . E 5 HOH G 102 502 3 HOH HOH . E 5 HOH G 103 503 212 HOH HOH . E 5 HOH G 104 504 99 HOH HOH . E 5 HOH G 105 505 203 HOH HOH . E 5 HOH G 106 506 94 HOH HOH . E 5 HOH G 107 507 190 HOH HOH . E 5 HOH G 108 508 12 HOH HOH . E 5 HOH G 109 509 58 HOH HOH . E 5 HOH G 110 510 57 HOH HOH . E 5 HOH G 111 511 97 HOH HOH . E 5 HOH G 112 512 60 HOH HOH . E 5 HOH G 113 513 13 HOH HOH . E 5 HOH G 114 514 47 HOH HOH . E 5 HOH G 115 515 194 HOH HOH . E 5 HOH G 116 516 179 HOH HOH . E 5 HOH G 117 517 75 HOH HOH . E 5 HOH G 118 518 189 HOH HOH . E 5 HOH G 119 519 19 HOH HOH . E 5 HOH G 120 520 127 HOH HOH . E 5 HOH G 121 521 88 HOH HOH . E 5 HOH G 122 522 34 HOH HOH . E 5 HOH G 123 523 70 HOH HOH . E 5 HOH G 124 524 22 HOH HOH . E 5 HOH G 125 525 138 HOH HOH . E 5 HOH G 126 526 134 HOH HOH . E 5 HOH G 127 527 4 HOH HOH . E 5 HOH G 128 528 87 HOH HOH . E 5 HOH G 129 529 122 HOH HOH . E 5 HOH G 130 530 29 HOH HOH . E 5 HOH G 131 531 69 HOH HOH . E 5 HOH G 132 532 172 HOH HOH . E 5 HOH G 133 533 68 HOH HOH . E 5 HOH G 134 534 152 HOH HOH . E 5 HOH G 135 535 166 HOH HOH . E 5 HOH G 136 536 72 HOH HOH . E 5 HOH G 137 537 178 HOH HOH . E 5 HOH G 138 538 66 HOH HOH . E 5 HOH G 139 539 256 HOH HOH . E 5 HOH G 140 540 259 HOH HOH . E 5 HOH G 141 541 62 HOH HOH . E 5 HOH G 142 542 207 HOH HOH . E 5 HOH G 143 543 142 HOH HOH . E 5 HOH G 144 544 237 HOH HOH . E 5 HOH G 145 545 89 HOH HOH . E 5 HOH G 146 546 257 HOH HOH . E 5 HOH G 147 547 215 HOH HOH . E 5 HOH G 148 548 193 HOH HOH . E 5 HOH G 149 549 136 HOH HOH . E 5 HOH G 150 550 44 HOH HOH . E 5 HOH G 151 551 93 HOH HOH . E 5 HOH G 152 552 90 HOH HOH . E 5 HOH G 153 553 168 HOH HOH . E 5 HOH G 154 554 182 HOH HOH . E 5 HOH G 155 555 209 HOH HOH . E 5 HOH G 156 556 26 HOH HOH . E 5 HOH G 157 557 124 HOH HOH . E 5 HOH G 158 558 42 HOH HOH . E 5 HOH G 159 559 96 HOH HOH . E 5 HOH G 160 560 140 HOH HOH . E 5 HOH G 161 561 110 HOH HOH . E 5 HOH G 162 562 181 HOH HOH . E 5 HOH G 163 563 143 HOH HOH . E 5 HOH G 164 564 51 HOH HOH . E 5 HOH G 165 565 156 HOH HOH . E 5 HOH G 166 566 175 HOH HOH . E 5 HOH G 167 567 239 HOH HOH . E 5 HOH G 168 568 254 HOH HOH . E 5 HOH G 169 569 125 HOH HOH . E 5 HOH G 170 570 50 HOH HOH . E 5 HOH G 171 571 84 HOH HOH . E 5 HOH G 172 572 176 HOH HOH . E 5 HOH G 173 573 191 HOH HOH . E 5 HOH G 174 574 157 HOH HOH . E 5 HOH G 175 575 192 HOH HOH . E 5 HOH G 176 576 113 HOH HOH . E 5 HOH G 177 577 217 HOH HOH . E 5 HOH G 178 578 115 HOH HOH . E 5 HOH G 179 579 116 HOH HOH . E 5 HOH G 180 580 225 HOH HOH . E 5 HOH G 181 581 252 HOH HOH . E 5 HOH G 182 582 119 HOH HOH . E 5 HOH G 183 583 258 HOH HOH . E 5 HOH G 184 584 107 HOH HOH . E 5 HOH G 185 585 195 HOH HOH . E 5 HOH G 186 586 102 HOH HOH . E 5 HOH G 187 587 77 HOH HOH . E 5 HOH G 188 588 251 HOH HOH . E 5 HOH G 189 589 150 HOH HOH . E 5 HOH G 190 590 213 HOH HOH . E 5 HOH G 191 591 98 HOH HOH . E 5 HOH G 192 592 146 HOH HOH . E 5 HOH G 193 593 197 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 O O1 G3P . . . C 3 -8.809 6.099 -11.038 0.92 24.14 ? O1 G3P 302 G 1 HETATM 2 C C1 G3P . . . C 3 -8.732 6.046 -9.602 0.92 25.21 ? C1 G3P 302 G 1 HETATM 3 C C2 G3P . . . C 3 -7.279 6.252 -9.266 0.92 23.89 ? C2 G3P 302 G 1 HETATM 4 O O2 G3P . . . C 3 -6.517 5.409 -10.138 0.92 22 ? O2 G3P 302 G 1 HETATM 5 C C3 G3P . . . C 3 -7.004 7.727 -9.487 0.92 30.64 ? C3 G3P 302 G 1 HETATM 6 O O1P G3P . . . C 3 -5.96 8.206 -8.67 0.92 29.48 ? O1P G3P 302 G 1 HETATM 7 O O4P G3P . . . C 3 -4.138 6.483 -9.128 0.92 26.83 ? O4P G3P 302 G 1 HETATM 8 O O2P G3P . . . C 3 -4.199 8.609 -10.41 0.92 29.92 1 O2P G3P 302 G 1 HETATM 9 O O3P G3P . . . C 3 -3.527 8.604 -8.017 0.92 35.37 1 O3P G3P 302 G 1 HETATM 10 P P G3P . . . C 3 -4.433 7.972 -9.047 0.92 32.93 ? P G3P 302 G 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #