data_3VM4 # _model_server_result.job_id SadCLXb6JZLLQXPRaRgDiw _model_server_result.datetime_utc '2024-10-19 11:29:42' _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 3vm4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":417}' # _entry.id 3VM4 # _exptl.entry_id 3VM4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4R)-2-METHYLPENTANE-2,4-DIOL _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 120 _cell.entry_id 3VM4 _cell.length_a 94.39 _cell.length_b 94.39 _cell.length_c 112.863 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VM4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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,F _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 D N N ? 4 E 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 SG CYS 353 A CYS 361 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc2 B FE HEM . A HEM 501 1_555 F O HOH . A HOH 554 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MRD _chem_comp.mon_nstd_flag . _chem_comp.name (4R)-2-METHYLPENTANE-2,4-DIOL _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 MRD sing 352 n n C1 H1C1 MRD sing 353 n n C1 H1C2 MRD sing 354 n n C1 H1C3 MRD sing 355 n n C2 O2 MRD sing 356 n n C2 CM MRD sing 357 n n C2 C3 MRD sing 358 n n O2 H2 MRD sing 359 n n CM HMC1 MRD sing 360 n n CM HMC2 MRD sing 361 n n CM HMC3 MRD sing 362 n n C3 C4 MRD sing 363 n n C3 H3C1 MRD sing 364 n n C3 H3C2 MRD sing 365 n n C4 O4 MRD sing 366 n n C4 C5 MRD sing 367 n n C4 H4 MRD sing 368 n n O4 HA MRD sing 369 n n C5 H5C1 MRD sing 370 n n C5 H5C2 MRD sing 371 n n C5 H5C3 MRD sing 372 n n # _atom_sites.entry_id 3VM4 _atom_sites.fract_transf_matrix[1][1] 0.010594 _atom_sites.fract_transf_matrix[1][2] 0.006117 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012233 _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] 0.00886 _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 HEM A 1 501 501 HEM HEM . C 3 IZP A 1 1 1 IZP IZP . D 4 MRD A 1 416 1 MRD MRD . E 4 MRD A 1 417 1 MRD MRD . F 5 HOH A 1 2 2 HOH HOH . F 5 HOH A 2 3 3 HOH HOH . F 5 HOH A 3 4 4 HOH HOH . F 5 HOH A 4 5 5 HOH HOH . F 5 HOH A 5 6 6 HOH HOH . F 5 HOH A 6 7 7 HOH HOH . F 5 HOH A 7 8 8 HOH HOH . F 5 HOH A 8 418 1 HOH HOH . F 5 HOH A 9 419 9 HOH HOH . F 5 HOH A 10 420 10 HOH HOH . F 5 HOH A 11 421 11 HOH HOH . F 5 HOH A 12 422 12 HOH HOH . F 5 HOH A 13 423 13 HOH HOH . F 5 HOH A 14 424 14 HOH HOH . F 5 HOH A 15 425 15 HOH HOH . F 5 HOH A 16 426 16 HOH HOH . F 5 HOH A 17 427 17 HOH HOH . F 5 HOH A 18 428 18 HOH HOH . F 5 HOH A 19 429 19 HOH HOH . F 5 HOH A 20 430 20 HOH HOH . F 5 HOH A 21 431 21 HOH HOH . F 5 HOH A 22 432 22 HOH HOH . F 5 HOH A 23 433 23 HOH HOH . F 5 HOH A 24 434 24 HOH HOH . F 5 HOH A 25 435 25 HOH HOH . F 5 HOH A 26 436 26 HOH HOH . F 5 HOH A 27 437 27 HOH HOH . F 5 HOH A 28 438 28 HOH HOH . F 5 HOH A 29 439 29 HOH HOH . F 5 HOH A 30 440 30 HOH HOH . F 5 HOH A 31 441 31 HOH HOH . F 5 HOH A 32 442 32 HOH HOH . F 5 HOH A 33 443 33 HOH HOH . F 5 HOH A 34 444 34 HOH HOH . F 5 HOH A 35 445 35 HOH HOH . F 5 HOH A 36 446 36 HOH HOH . F 5 HOH A 37 447 37 HOH HOH . F 5 HOH A 38 448 38 HOH HOH . F 5 HOH A 39 449 39 HOH HOH . F 5 HOH A 40 450 40 HOH HOH . F 5 HOH A 41 451 41 HOH HOH . F 5 HOH A 42 452 42 HOH HOH . F 5 HOH A 43 453 43 HOH HOH . F 5 HOH A 44 454 44 HOH HOH . F 5 HOH A 45 455 45 HOH HOH . F 5 HOH A 46 456 46 HOH HOH . F 5 HOH A 47 457 47 HOH HOH . F 5 HOH A 48 458 48 HOH HOH . F 5 HOH A 49 459 49 HOH HOH . F 5 HOH A 50 460 50 HOH HOH . F 5 HOH A 51 461 51 HOH HOH . F 5 HOH A 52 462 52 HOH HOH . F 5 HOH A 53 463 53 HOH HOH . F 5 HOH A 54 464 54 HOH HOH . F 5 HOH A 55 465 55 HOH HOH . F 5 HOH A 56 466 56 HOH HOH . F 5 HOH A 57 467 57 HOH HOH . F 5 HOH A 58 468 58 HOH HOH . F 5 HOH A 59 469 59 HOH HOH . F 5 HOH A 60 470 60 HOH HOH . F 5 HOH A 61 471 61 HOH HOH . F 5 HOH A 62 472 62 HOH HOH . F 5 HOH A 63 473 63 HOH HOH . F 5 HOH A 64 474 64 HOH HOH . F 5 HOH A 65 475 65 HOH HOH . F 5 HOH A 66 476 66 HOH HOH . F 5 HOH A 67 477 67 HOH HOH . F 5 HOH A 68 478 68 HOH HOH . F 5 HOH A 69 479 69 HOH HOH . F 5 HOH A 70 480 70 HOH HOH . F 5 HOH A 71 481 71 HOH HOH . F 5 HOH A 72 482 72 HOH HOH . F 5 HOH A 73 483 73 HOH HOH . F 5 HOH A 74 484 74 HOH HOH . F 5 HOH A 75 485 75 HOH HOH . F 5 HOH A 76 486 76 HOH HOH . F 5 HOH A 77 487 77 HOH HOH . F 5 HOH A 78 488 78 HOH HOH . F 5 HOH A 79 489 79 HOH HOH . F 5 HOH A 80 490 80 HOH HOH . F 5 HOH A 81 491 81 HOH HOH . F 5 HOH A 82 492 82 HOH HOH . F 5 HOH A 83 493 83 HOH HOH . F 5 HOH A 84 494 84 HOH HOH . F 5 HOH A 85 495 86 HOH HOH . F 5 HOH A 86 496 87 HOH HOH . F 5 HOH A 87 497 88 HOH HOH . F 5 HOH A 88 498 89 HOH HOH . F 5 HOH A 89 499 90 HOH HOH . F 5 HOH A 90 500 91 HOH HOH . F 5 HOH A 91 502 92 HOH HOH . F 5 HOH A 92 503 93 HOH HOH . F 5 HOH A 93 504 94 HOH HOH . F 5 HOH A 94 505 95 HOH HOH . F 5 HOH A 95 506 96 HOH HOH . F 5 HOH A 96 507 97 HOH HOH . F 5 HOH A 97 508 98 HOH HOH . F 5 HOH A 98 509 99 HOH HOH . F 5 HOH A 99 510 100 HOH HOH . F 5 HOH A 100 511 101 HOH HOH . F 5 HOH A 101 512 102 HOH HOH . F 5 HOH A 102 513 103 HOH HOH . F 5 HOH A 103 514 104 HOH HOH . F 5 HOH A 104 515 105 HOH HOH . F 5 HOH A 105 516 106 HOH HOH . F 5 HOH A 106 517 107 HOH HOH . F 5 HOH A 107 518 108 HOH HOH . F 5 HOH A 108 519 109 HOH HOH . F 5 HOH A 109 520 110 HOH HOH . F 5 HOH A 110 521 111 HOH HOH . F 5 HOH A 111 522 112 HOH HOH . F 5 HOH A 112 523 113 HOH HOH . F 5 HOH A 113 524 114 HOH HOH . F 5 HOH A 114 525 115 HOH HOH . F 5 HOH A 115 526 116 HOH HOH . F 5 HOH A 116 527 117 HOH HOH . F 5 HOH A 117 528 118 HOH HOH . F 5 HOH A 118 529 119 HOH HOH . F 5 HOH A 119 530 120 HOH HOH . F 5 HOH A 120 531 121 HOH HOH . F 5 HOH A 121 532 122 HOH HOH . F 5 HOH A 122 533 123 HOH HOH . F 5 HOH A 123 534 124 HOH HOH . F 5 HOH A 124 535 125 HOH HOH . F 5 HOH A 125 536 126 HOH HOH . F 5 HOH A 126 537 127 HOH HOH . F 5 HOH A 127 538 128 HOH HOH . F 5 HOH A 128 539 129 HOH HOH . F 5 HOH A 129 540 130 HOH HOH . F 5 HOH A 130 541 131 HOH HOH . F 5 HOH A 131 542 132 HOH HOH . F 5 HOH A 132 543 133 HOH HOH . F 5 HOH A 133 544 134 HOH HOH . F 5 HOH A 134 545 135 HOH HOH . F 5 HOH A 135 546 136 HOH HOH . F 5 HOH A 136 547 137 HOH HOH . F 5 HOH A 137 548 138 HOH HOH . F 5 HOH A 138 549 139 HOH HOH . F 5 HOH A 139 550 140 HOH HOH . F 5 HOH A 140 551 141 HOH HOH . F 5 HOH A 141 552 142 HOH HOH . F 5 HOH A 142 553 143 HOH HOH . F 5 HOH A 143 554 144 HOH HOH . F 5 HOH A 144 555 145 HOH HOH . F 5 HOH A 145 556 146 HOH HOH . F 5 HOH A 146 557 147 HOH HOH . F 5 HOH A 147 558 148 HOH HOH . F 5 HOH A 148 559 149 HOH HOH . F 5 HOH A 149 560 150 HOH HOH . F 5 HOH A 150 561 151 HOH HOH . F 5 HOH A 151 562 152 HOH HOH . F 5 HOH A 152 563 153 HOH HOH . F 5 HOH A 153 564 154 HOH HOH . F 5 HOH A 154 565 155 HOH HOH . F 5 HOH A 155 566 156 HOH HOH . F 5 HOH A 156 567 157 HOH HOH . F 5 HOH A 157 568 158 HOH HOH . F 5 HOH A 158 569 159 HOH HOH . F 5 HOH A 159 570 160 HOH HOH . F 5 HOH A 160 571 161 HOH HOH . F 5 HOH A 161 572 162 HOH HOH . F 5 HOH A 162 573 163 HOH HOH . F 5 HOH A 163 574 164 HOH HOH . F 5 HOH A 164 575 165 HOH HOH . F 5 HOH A 165 576 166 HOH HOH . F 5 HOH A 166 577 167 HOH HOH . F 5 HOH A 167 578 168 HOH HOH . F 5 HOH A 168 579 169 HOH HOH . F 5 HOH A 169 580 170 HOH HOH . F 5 HOH A 170 581 171 HOH HOH . F 5 HOH A 171 582 172 HOH HOH . F 5 HOH A 172 583 173 HOH HOH . F 5 HOH A 173 584 174 HOH HOH . F 5 HOH A 174 585 175 HOH HOH . F 5 HOH A 175 586 177 HOH HOH . F 5 HOH A 176 587 178 HOH HOH . F 5 HOH A 177 588 179 HOH HOH . F 5 HOH A 178 589 180 HOH HOH . F 5 HOH A 179 590 181 HOH HOH . F 5 HOH A 180 591 182 HOH HOH . F 5 HOH A 181 592 183 HOH HOH . F 5 HOH A 182 593 184 HOH HOH . F 5 HOH A 183 594 185 HOH HOH . F 5 HOH A 184 595 186 HOH HOH . F 5 HOH A 185 596 187 HOH HOH . F 5 HOH A 186 597 188 HOH HOH . F 5 HOH A 187 598 189 HOH HOH . F 5 HOH A 188 599 190 HOH HOH . F 5 HOH A 189 600 191 HOH HOH . F 5 HOH A 190 601 192 HOH HOH . F 5 HOH A 191 602 193 HOH HOH . F 5 HOH A 192 603 194 HOH HOH . F 5 HOH A 193 604 195 HOH HOH . F 5 HOH A 194 605 196 HOH HOH . F 5 HOH A 195 606 197 HOH HOH . F 5 HOH A 196 607 198 HOH HOH . F 5 HOH A 197 608 199 HOH HOH . F 5 HOH A 198 609 200 HOH HOH . F 5 HOH A 199 610 201 HOH HOH . F 5 HOH A 200 611 202 HOH HOH . F 5 HOH A 201 612 203 HOH HOH . F 5 HOH A 202 613 204 HOH HOH . F 5 HOH A 203 614 205 HOH HOH . F 5 HOH A 204 615 206 HOH HOH . F 5 HOH A 205 616 207 HOH HOH . F 5 HOH A 206 617 208 HOH HOH . F 5 HOH A 207 618 209 HOH HOH . F 5 HOH A 208 619 210 HOH HOH . F 5 HOH A 209 620 211 HOH HOH . F 5 HOH A 210 621 212 HOH HOH . F 5 HOH A 211 622 213 HOH HOH . F 5 HOH A 212 623 214 HOH HOH . F 5 HOH A 213 624 215 HOH HOH . F 5 HOH A 214 625 216 HOH HOH . F 5 HOH A 215 626 217 HOH HOH . F 5 HOH A 216 627 218 HOH HOH . F 5 HOH A 217 628 219 HOH HOH . F 5 HOH A 218 629 220 HOH HOH . F 5 HOH A 219 630 221 HOH HOH . F 5 HOH A 220 631 222 HOH HOH . F 5 HOH A 221 632 223 HOH HOH . F 5 HOH A 222 633 224 HOH HOH . F 5 HOH A 223 634 225 HOH HOH . F 5 HOH A 224 635 226 HOH HOH . F 5 HOH A 225 636 227 HOH HOH . F 5 HOH A 226 637 228 HOH HOH . F 5 HOH A 227 638 229 HOH HOH . F 5 HOH A 228 639 230 HOH HOH . F 5 HOH A 229 640 231 HOH HOH . F 5 HOH A 230 641 232 HOH HOH . F 5 HOH A 231 642 233 HOH HOH . F 5 HOH A 232 643 234 HOH HOH . F 5 HOH A 233 644 235 HOH HOH . F 5 HOH A 234 645 236 HOH HOH . F 5 HOH A 235 646 237 HOH HOH . F 5 HOH A 236 647 238 HOH HOH . F 5 HOH A 237 648 239 HOH HOH . F 5 HOH A 238 649 240 HOH HOH . F 5 HOH A 239 650 241 HOH HOH . F 5 HOH A 240 651 242 HOH HOH . F 5 HOH A 241 652 243 HOH HOH . F 5 HOH A 242 653 244 HOH HOH . F 5 HOH A 243 654 245 HOH HOH . F 5 HOH A 244 655 246 HOH HOH . F 5 HOH A 245 656 247 HOH HOH . F 5 HOH A 246 657 248 HOH HOH . F 5 HOH A 247 658 249 HOH HOH . F 5 HOH A 248 659 250 HOH HOH . F 5 HOH A 249 660 251 HOH HOH . F 5 HOH A 250 661 252 HOH HOH . F 5 HOH A 251 662 253 HOH HOH . F 5 HOH A 252 663 254 HOH HOH . F 5 HOH A 253 664 255 HOH HOH . F 5 HOH A 254 665 256 HOH HOH . F 5 HOH A 255 666 257 HOH HOH . F 5 HOH A 256 667 258 HOH HOH . F 5 HOH A 257 668 259 HOH HOH . F 5 HOH A 258 669 260 HOH HOH . F 5 HOH A 259 670 261 HOH HOH . F 5 HOH A 260 671 262 HOH HOH . F 5 HOH A 261 672 263 HOH HOH . F 5 HOH A 262 673 264 HOH HOH . F 5 HOH A 263 674 265 HOH HOH . F 5 HOH A 264 675 266 HOH HOH . F 5 HOH A 265 676 267 HOH HOH . F 5 HOH A 266 677 268 HOH HOH . F 5 HOH A 267 678 269 HOH HOH . F 5 HOH A 268 679 270 HOH HOH . F 5 HOH A 269 680 271 HOH HOH . F 5 HOH A 270 681 272 HOH HOH . F 5 HOH A 271 682 273 HOH HOH . F 5 HOH A 272 683 274 HOH HOH . F 5 HOH A 273 684 275 HOH HOH . F 5 HOH A 274 685 276 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 MRD . . . E 4 5.357 -29.469 4.174 1 48.26 ? C1 MRD 417 A 1 HETATM 2 C C2 MRD . . . E 4 4.454 -29.992 3.057 1 48.01 ? C2 MRD 417 A 1 HETATM 3 O O2 MRD . . . E 4 3.493 -30.931 3.618 1 49.62 ? O2 MRD 417 A 1 HETATM 4 C CM MRD . . . E 4 3.672 -28.822 2.46 1 48.84 ? CM MRD 417 A 1 HETATM 5 C C3 MRD . . . E 4 5.27 -30.679 1.95 1 48.07 ? C3 MRD 417 A 1 HETATM 6 C C4 MRD . . . E 4 5.932 -32.006 2.339 1 46.98 ? C4 MRD 417 A 1 HETATM 7 O O4 MRD . . . E 4 7.258 -31.788 2.758 1 47.55 ? O4 MRD 417 A 1 HETATM 8 C C5 MRD . . . E 4 5.997 -32.982 1.171 1 47.16 ? C5 MRD 417 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #