data_3R4T # _model_server_result.job_id VmKFzskjmVJxPEXX0B6dlg _model_server_result.datetime_utc '2024-11-05 00:30:28' _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 3r4t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":446}' # _entry.id 3R4T # _exptl.entry_id 3R4T _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 120 _cell.entry_id 3R4T _cell.length_a 123.62 _cell.length_b 123.62 _cell.length_c 157.59 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3R4T _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # 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 author_and_software_defined_assembly 1 PISA tetrameric 4 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,C,D,E,F,G,H 1 1,2 A,B,C,D,E,F,G,H 2 1,3,4,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 12_565 x,x-y+1,-z+1/3 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -61.81 107.05806 52.53 3 'crystal symmetry operation' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -61.81 107.05806 0 4 'crystal symmetry operation' 9_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 52.53 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 covale ? covale1 A C ALA 312 A ALA 290 1_555 A N LLP 313 A LLP 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale2 A C LLP 313 A LLP 291 1_555 A N GLY 314 A GLY 292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? metalc ? metalc1 A O ALA 49 A ALA 27 1_555 G NA NA . A NA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? metalc ? metalc2 G NA NA . A NA 451 1_555 H O HOH . A HOH 653 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc3 G NA NA . A NA 451 1_555 H O HOH . A HOH 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 MPD sing 284 n n C1 H11 MPD sing 285 n n C1 H12 MPD sing 286 n n C1 H13 MPD sing 287 n n C2 O2 MPD sing 288 n n C2 CM MPD sing 289 n n C2 C3 MPD sing 290 n n O2 HO2 MPD sing 291 n n CM HM1 MPD sing 292 n n CM HM2 MPD sing 293 n n CM HM3 MPD sing 294 n n C3 C4 MPD sing 295 n n C3 H31 MPD sing 296 n n C3 H32 MPD sing 297 n n C4 O4 MPD sing 298 n n C4 C5 MPD sing 299 n n C4 H4 MPD sing 300 n n O4 HO4 MPD sing 301 n n C5 H51 MPD sing 302 n n C5 H52 MPD sing 303 n n C5 H53 MPD sing 304 n n # _atom_sites.entry_id 3R4T _atom_sites.fract_transf_matrix[1][1] 0.008089 _atom_sites.fract_transf_matrix[1][2] 0.00467 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009341 _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] 0.006346 _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 MPD A 1 446 1 MPD MPD . C 3 CL A 1 447 2 CL CL . D 3 CL A 1 448 3 CL CL . E 3 CL A 1 449 4 CL CL . F 3 CL A 1 450 5 CL CL . G 4 NA A 1 451 6 NA NA . H 5 HOH A 1 452 1 HOH HOH . H 5 HOH A 2 453 2 HOH HOH . H 5 HOH A 3 454 3 HOH HOH . H 5 HOH A 4 455 4 HOH HOH . H 5 HOH A 5 456 5 HOH HOH . H 5 HOH A 6 457 6 HOH HOH . H 5 HOH A 7 458 7 HOH HOH . H 5 HOH A 8 459 8 HOH HOH . H 5 HOH A 9 460 9 HOH HOH . H 5 HOH A 10 461 10 HOH HOH . H 5 HOH A 11 462 11 HOH HOH . H 5 HOH A 12 463 12 HOH HOH . H 5 HOH A 13 464 13 HOH HOH . H 5 HOH A 14 465 14 HOH HOH . H 5 HOH A 15 466 15 HOH HOH . H 5 HOH A 16 467 16 HOH HOH . H 5 HOH A 17 468 17 HOH HOH . H 5 HOH A 18 469 18 HOH HOH . H 5 HOH A 19 470 19 HOH HOH . H 5 HOH A 20 471 20 HOH HOH . H 5 HOH A 21 472 21 HOH HOH . H 5 HOH A 22 473 22 HOH HOH . H 5 HOH A 23 474 23 HOH HOH . H 5 HOH A 24 475 24 HOH HOH . H 5 HOH A 25 476 25 HOH HOH . H 5 HOH A 26 477 26 HOH HOH . H 5 HOH A 27 478 27 HOH HOH . H 5 HOH A 28 479 28 HOH HOH . H 5 HOH A 29 480 29 HOH HOH . H 5 HOH A 30 481 30 HOH HOH . H 5 HOH A 31 482 31 HOH HOH . H 5 HOH A 32 483 32 HOH HOH . H 5 HOH A 33 484 33 HOH HOH . H 5 HOH A 34 485 34 HOH HOH . H 5 HOH A 35 486 35 HOH HOH . H 5 HOH A 36 487 36 HOH HOH . H 5 HOH A 37 488 37 HOH HOH . H 5 HOH A 38 489 38 HOH HOH . H 5 HOH A 39 490 39 HOH HOH . H 5 HOH A 40 491 40 HOH HOH . H 5 HOH A 41 492 41 HOH HOH . H 5 HOH A 42 493 42 HOH HOH . H 5 HOH A 43 494 43 HOH HOH . H 5 HOH A 44 495 44 HOH HOH . H 5 HOH A 45 496 45 HOH HOH . H 5 HOH A 46 497 46 HOH HOH . H 5 HOH A 47 498 47 HOH HOH . H 5 HOH A 48 499 48 HOH HOH . H 5 HOH A 49 500 49 HOH HOH . H 5 HOH A 50 501 50 HOH HOH . H 5 HOH A 51 502 51 HOH HOH . H 5 HOH A 52 503 52 HOH HOH . H 5 HOH A 53 504 53 HOH HOH . H 5 HOH A 54 505 54 HOH HOH . H 5 HOH A 55 506 55 HOH HOH . H 5 HOH A 56 507 56 HOH HOH . H 5 HOH A 57 508 57 HOH HOH . H 5 HOH A 58 509 58 HOH HOH . H 5 HOH A 59 510 59 HOH HOH . H 5 HOH A 60 511 60 HOH HOH . H 5 HOH A 61 512 61 HOH HOH . H 5 HOH A 62 513 62 HOH HOH . H 5 HOH A 63 514 63 HOH HOH . H 5 HOH A 64 515 64 HOH HOH . H 5 HOH A 65 516 65 HOH HOH . H 5 HOH A 66 517 66 HOH HOH . H 5 HOH A 67 518 67 HOH HOH . H 5 HOH A 68 519 68 HOH HOH . H 5 HOH A 69 520 69 HOH HOH . H 5 HOH A 70 521 70 HOH HOH . H 5 HOH A 71 522 71 HOH HOH . H 5 HOH A 72 523 72 HOH HOH . H 5 HOH A 73 524 73 HOH HOH . H 5 HOH A 74 525 74 HOH HOH . H 5 HOH A 75 526 75 HOH HOH . H 5 HOH A 76 527 76 HOH HOH . H 5 HOH A 77 528 77 HOH HOH . H 5 HOH A 78 529 78 HOH HOH . H 5 HOH A 79 530 79 HOH HOH . H 5 HOH A 80 531 80 HOH HOH . H 5 HOH A 81 532 81 HOH HOH . H 5 HOH A 82 533 82 HOH HOH . H 5 HOH A 83 534 83 HOH HOH . H 5 HOH A 84 535 84 HOH HOH . H 5 HOH A 85 536 85 HOH HOH . H 5 HOH A 86 537 86 HOH HOH . H 5 HOH A 87 538 87 HOH HOH . H 5 HOH A 88 539 88 HOH HOH . H 5 HOH A 89 540 89 HOH HOH . H 5 HOH A 90 541 90 HOH HOH . H 5 HOH A 91 542 91 HOH HOH . H 5 HOH A 92 543 92 HOH HOH . H 5 HOH A 93 544 93 HOH HOH . H 5 HOH A 94 545 94 HOH HOH . H 5 HOH A 95 546 95 HOH HOH . H 5 HOH A 96 547 96 HOH HOH . H 5 HOH A 97 548 97 HOH HOH . H 5 HOH A 98 549 98 HOH HOH . H 5 HOH A 99 550 99 HOH HOH . H 5 HOH A 100 551 100 HOH HOH . H 5 HOH A 101 552 101 HOH HOH . H 5 HOH A 102 553 102 HOH HOH . H 5 HOH A 103 554 103 HOH HOH . H 5 HOH A 104 555 104 HOH HOH . H 5 HOH A 105 556 105 HOH HOH . H 5 HOH A 106 557 106 HOH HOH . H 5 HOH A 107 558 107 HOH HOH . H 5 HOH A 108 559 108 HOH HOH . H 5 HOH A 109 560 109 HOH HOH . H 5 HOH A 110 561 110 HOH HOH . H 5 HOH A 111 562 111 HOH HOH . H 5 HOH A 112 563 112 HOH HOH . H 5 HOH A 113 564 113 HOH HOH . H 5 HOH A 114 565 114 HOH HOH . H 5 HOH A 115 566 115 HOH HOH . H 5 HOH A 116 567 116 HOH HOH . H 5 HOH A 117 568 117 HOH HOH . H 5 HOH A 118 569 118 HOH HOH . H 5 HOH A 119 570 119 HOH HOH . H 5 HOH A 120 571 120 HOH HOH . H 5 HOH A 121 572 121 HOH HOH . H 5 HOH A 122 573 122 HOH HOH . H 5 HOH A 123 574 123 HOH HOH . H 5 HOH A 124 575 124 HOH HOH . H 5 HOH A 125 576 125 HOH HOH . H 5 HOH A 126 577 126 HOH HOH . H 5 HOH A 127 578 127 HOH HOH . H 5 HOH A 128 579 128 HOH HOH . H 5 HOH A 129 580 129 HOH HOH . H 5 HOH A 130 581 130 HOH HOH . H 5 HOH A 131 582 131 HOH HOH . H 5 HOH A 132 583 132 HOH HOH . H 5 HOH A 133 584 133 HOH HOH . H 5 HOH A 134 585 134 HOH HOH . H 5 HOH A 135 586 135 HOH HOH . H 5 HOH A 136 587 136 HOH HOH . H 5 HOH A 137 588 137 HOH HOH . H 5 HOH A 138 589 138 HOH HOH . H 5 HOH A 139 590 139 HOH HOH . H 5 HOH A 140 591 140 HOH HOH . H 5 HOH A 141 592 141 HOH HOH . H 5 HOH A 142 593 142 HOH HOH . H 5 HOH A 143 594 143 HOH HOH . H 5 HOH A 144 595 144 HOH HOH . H 5 HOH A 145 596 145 HOH HOH . H 5 HOH A 146 597 146 HOH HOH . H 5 HOH A 147 598 147 HOH HOH . H 5 HOH A 148 599 148 HOH HOH . H 5 HOH A 149 600 149 HOH HOH . H 5 HOH A 150 601 150 HOH HOH . H 5 HOH A 151 602 151 HOH HOH . H 5 HOH A 152 603 152 HOH HOH . H 5 HOH A 153 604 153 HOH HOH . H 5 HOH A 154 605 154 HOH HOH . H 5 HOH A 155 606 155 HOH HOH . H 5 HOH A 156 607 156 HOH HOH . H 5 HOH A 157 608 157 HOH HOH . H 5 HOH A 158 609 158 HOH HOH . H 5 HOH A 159 610 159 HOH HOH . H 5 HOH A 160 611 160 HOH HOH . H 5 HOH A 161 612 161 HOH HOH . H 5 HOH A 162 613 162 HOH HOH . H 5 HOH A 163 614 163 HOH HOH . H 5 HOH A 164 615 164 HOH HOH . H 5 HOH A 165 616 165 HOH HOH . H 5 HOH A 166 617 166 HOH HOH . H 5 HOH A 167 618 167 HOH HOH . H 5 HOH A 168 619 168 HOH HOH . H 5 HOH A 169 620 169 HOH HOH . H 5 HOH A 170 621 170 HOH HOH . H 5 HOH A 171 622 171 HOH HOH . H 5 HOH A 172 623 172 HOH HOH . H 5 HOH A 173 624 173 HOH HOH . H 5 HOH A 174 625 174 HOH HOH . H 5 HOH A 175 626 175 HOH HOH . H 5 HOH A 176 627 176 HOH HOH . H 5 HOH A 177 628 177 HOH HOH . H 5 HOH A 178 629 178 HOH HOH . H 5 HOH A 179 630 179 HOH HOH . H 5 HOH A 180 631 180 HOH HOH . H 5 HOH A 181 632 181 HOH HOH . H 5 HOH A 182 633 182 HOH HOH . H 5 HOH A 183 634 183 HOH HOH . H 5 HOH A 184 635 184 HOH HOH . H 5 HOH A 185 636 185 HOH HOH . H 5 HOH A 186 637 186 HOH HOH . H 5 HOH A 187 638 187 HOH HOH . H 5 HOH A 188 639 188 HOH HOH . H 5 HOH A 189 640 190 HOH HOH . H 5 HOH A 190 641 191 HOH HOH . H 5 HOH A 191 642 192 HOH HOH . H 5 HOH A 192 643 193 HOH HOH . H 5 HOH A 193 644 194 HOH HOH . H 5 HOH A 194 645 195 HOH HOH . H 5 HOH A 195 646 196 HOH HOH . H 5 HOH A 196 647 197 HOH HOH . H 5 HOH A 197 648 198 HOH HOH . H 5 HOH A 198 649 201 HOH HOH . H 5 HOH A 199 650 202 HOH HOH . H 5 HOH A 200 651 203 HOH HOH . H 5 HOH A 201 652 204 HOH HOH . H 5 HOH A 202 653 205 HOH HOH . H 5 HOH A 203 654 206 HOH HOH . H 5 HOH A 204 655 207 HOH HOH . H 5 HOH A 205 656 208 HOH HOH . H 5 HOH A 206 657 209 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 MPD . . . B 2 -24.894 62.33 9.966 1 51.55 ? C1 MPD 446 A 1 HETATM 2 C C2 MPD . . . B 2 -25.64 62.582 8.645 1 52.29 ? C2 MPD 446 A 1 HETATM 3 O O2 MPD . . . B 2 -25.704 64.02 8.423 1 49.93 ? O2 MPD 446 A 1 HETATM 4 C CM MPD . . . B 2 -24.854 61.946 7.495 1 53.29 ? CM MPD 446 A 1 HETATM 5 C C3 MPD . . . B 2 -27.059 61.978 8.634 1 50.25 ? C3 MPD 446 A 1 HETATM 6 C C4 MPD . . . B 2 -28.019 62.552 9.682 1 47.93 ? C4 MPD 446 A 1 HETATM 7 O O4 MPD . . . B 2 -28.177 63.934 9.45 1 46.01 ? O4 MPD 446 A 1 HETATM 8 C C5 MPD . . . B 2 -29.366 61.835 9.653 1 45.47 ? C5 MPD 446 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #