data_3VQH
#
_model_server_result.job_id            6aOTjl7aZplEeflueSFZCA 
_model_server_result.datetime_utc      '2024-11-19 18:42:33' 
_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          3vqh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    3VQH 
#
_exptl.entry_id    3VQH 
_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            (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         90 
_cell.entry_id            3VQH 
_cell.length_a            72.73 
_cell.length_b            75.18 
_cell.length_c            80.33 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3VQH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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 GLY 10 A GLY 9 1_555 A N SEP 11 A SEP 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 A C SEP 11 A SEP 10 1_555 A N GLU 12 A GLU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale3 A C TRP 197 A TRP 196 1_555 A N TPO 198 A TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale4 A C TPO 198 A TPO 197 1_555 A N LEU 199 A LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale5 A C VAL 338 A VAL 337 1_555 A N SEP 339 A SEP 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale6 A C SEP 339 A SEP 338 1_555 A N ILE 340 A ILE 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
#
_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 286 n n 
C1 H11 MPD sing 287 n n 
C1 H12 MPD sing 288 n n 
C1 H13 MPD sing 289 n n 
C2 O2 MPD sing 290 n n 
C2 CM MPD sing 291 n n 
C2 C3 MPD sing 292 n n 
O2 HO2 MPD sing 293 n n 
CM HM1 MPD sing 294 n n 
CM HM2 MPD sing 295 n n 
CM HM3 MPD sing 296 n n 
C3 C4 MPD sing 297 n n 
C3 H31 MPD sing 298 n n 
C3 H32 MPD sing 299 n n 
C4 O4 MPD sing 300 n n 
C4 C5 MPD sing 301 n n 
C4 H4 MPD sing 302 n n 
O4 HO4 MPD sing 303 n n 
C5 H51 MPD sing 304 n n 
C5 H52 MPD sing 305 n n 
C5 H53 MPD sing 306 n n 
#
_atom_sites.entry_id                     3VQH 
_atom_sites.fract_transf_matrix[1][1]    0.013749 
_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]    0.013301 
_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]    0.012449 
_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 3 IQB A 1 401 1 IQB IQB . 
D 4 MPD A 1 402 2 MPD MPD . 
E 5 HOH A 1 501 1 HOH HOH . 
E 5 HOH A 2 502 2 HOH HOH . 
E 5 HOH A 3 503 3 HOH HOH . 
E 5 HOH A 4 504 4 HOH HOH . 
E 5 HOH A 5 505 5 HOH HOH . 
E 5 HOH A 6 506 6 HOH HOH . 
E 5 HOH A 7 507 7 HOH HOH . 
E 5 HOH A 8 508 8 HOH HOH . 
E 5 HOH A 9 509 9 HOH HOH . 
E 5 HOH A 10 510 10 HOH HOH . 
E 5 HOH A 11 511 11 HOH HOH . 
E 5 HOH A 12 512 12 HOH HOH . 
E 5 HOH A 13 513 14 HOH HOH . 
E 5 HOH A 14 514 15 HOH HOH . 
E 5 HOH A 15 515 17 HOH HOH . 
E 5 HOH A 16 516 18 HOH HOH . 
E 5 HOH A 17 517 19 HOH HOH . 
E 5 HOH A 18 518 20 HOH HOH . 
E 5 HOH A 19 519 21 HOH HOH . 
E 5 HOH A 20 520 23 HOH HOH . 
E 5 HOH A 21 521 24 HOH HOH . 
E 5 HOH A 22 522 25 HOH HOH . 
E 5 HOH A 23 523 26 HOH HOH . 
E 5 HOH A 24 524 27 HOH HOH . 
E 5 HOH A 25 525 28 HOH HOH . 
E 5 HOH A 26 526 29 HOH HOH . 
E 5 HOH A 27 527 30 HOH HOH . 
E 5 HOH A 28 528 31 HOH HOH . 
E 5 HOH A 29 529 33 HOH HOH . 
E 5 HOH A 30 530 34 HOH HOH . 
E 5 HOH A 31 531 35 HOH HOH . 
E 5 HOH A 32 532 36 HOH HOH . 
E 5 HOH A 33 533 37 HOH HOH . 
E 5 HOH A 34 534 38 HOH HOH . 
E 5 HOH A 35 535 39 HOH HOH . 
E 5 HOH A 36 536 40 HOH HOH . 
E 5 HOH A 37 537 41 HOH HOH . 
E 5 HOH A 38 538 43 HOH HOH . 
E 5 HOH A 39 539 44 HOH HOH . 
E 5 HOH A 40 540 45 HOH HOH . 
E 5 HOH A 41 541 46 HOH HOH . 
E 5 HOH A 42 542 47 HOH HOH . 
E 5 HOH A 43 543 49 HOH HOH . 
E 5 HOH A 44 544 50 HOH HOH . 
E 5 HOH A 45 545 51 HOH HOH . 
E 5 HOH A 46 546 52 HOH HOH . 
E 5 HOH A 47 547 53 HOH HOH . 
E 5 HOH A 48 548 54 HOH HOH . 
E 5 HOH A 49 549 55 HOH HOH . 
E 5 HOH A 50 550 56 HOH HOH . 
E 5 HOH A 51 551 57 HOH HOH . 
E 5 HOH A 52 552 60 HOH HOH . 
E 5 HOH A 53 553 61 HOH HOH . 
E 5 HOH A 54 554 62 HOH HOH . 
E 5 HOH A 55 555 63 HOH HOH . 
E 5 HOH A 56 556 64 HOH HOH . 
E 5 HOH A 57 557 66 HOH HOH . 
E 5 HOH A 58 558 67 HOH HOH . 
E 5 HOH A 59 559 68 HOH HOH . 
E 5 HOH A 60 560 70 HOH HOH . 
E 5 HOH A 61 561 71 HOH HOH . 
E 5 HOH A 62 562 72 HOH HOH . 
E 5 HOH A 63 563 73 HOH HOH . 
E 5 HOH A 64 564 74 HOH HOH . 
E 5 HOH A 65 565 75 HOH HOH . 
E 5 HOH A 66 566 76 HOH HOH . 
E 5 HOH A 67 567 77 HOH HOH . 
E 5 HOH A 68 568 78 HOH HOH . 
E 5 HOH A 69 569 80 HOH HOH . 
E 5 HOH A 70 570 81 HOH HOH . 
E 5 HOH A 71 571 82 HOH HOH . 
E 5 HOH A 72 572 83 HOH HOH . 
E 5 HOH A 73 573 84 HOH HOH . 
E 5 HOH A 74 574 85 HOH HOH . 
E 5 HOH A 75 575 86 HOH HOH . 
E 5 HOH A 76 576 87 HOH HOH . 
E 5 HOH A 77 577 88 HOH HOH . 
E 5 HOH A 78 578 89 HOH HOH . 
E 5 HOH A 79 579 90 HOH HOH . 
E 5 HOH A 80 580 92 HOH HOH . 
E 5 HOH A 81 581 93 HOH HOH . 
E 5 HOH A 82 582 94 HOH HOH . 
E 5 HOH A 83 583 95 HOH HOH . 
E 5 HOH A 84 584 96 HOH HOH . 
E 5 HOH A 85 585 97 HOH HOH . 
E 5 HOH A 86 586 98 HOH HOH . 
E 5 HOH A 87 587 99 HOH HOH . 
E 5 HOH A 88 588 100 HOH HOH . 
E 5 HOH A 89 589 101 HOH HOH . 
E 5 HOH A 90 590 102 HOH HOH . 
E 5 HOH A 91 591 103 HOH HOH . 
E 5 HOH A 92 592 104 HOH HOH . 
E 5 HOH A 93 593 105 HOH HOH . 
E 5 HOH A 94 594 106 HOH HOH . 
E 5 HOH A 95 595 107 HOH HOH . 
E 5 HOH A 96 596 109 HOH HOH . 
E 5 HOH A 97 597 110 HOH HOH . 
E 5 HOH A 98 598 111 HOH HOH . 
E 5 HOH A 99 599 112 HOH HOH . 
E 5 HOH A 100 600 114 HOH HOH . 
E 5 HOH A 101 601 115 HOH HOH . 
E 5 HOH A 102 602 116 HOH HOH . 
E 5 HOH A 103 603 117 HOH HOH . 
E 5 HOH A 104 604 118 HOH HOH . 
E 5 HOH A 105 605 119 HOH HOH . 
E 5 HOH A 106 606 120 HOH HOH . 
E 5 HOH A 107 607 121 HOH HOH . 
E 5 HOH A 108 608 123 HOH HOH . 
E 5 HOH A 109 609 124 HOH HOH . 
E 5 HOH A 110 610 125 HOH HOH . 
E 5 HOH A 111 611 126 HOH HOH . 
E 5 HOH A 112 612 127 HOH HOH . 
E 5 HOH A 113 613 128 HOH HOH . 
E 5 HOH A 114 614 130 HOH HOH . 
E 5 HOH A 115 615 131 HOH HOH . 
E 5 HOH A 116 616 132 HOH HOH . 
E 5 HOH A 117 617 133 HOH HOH . 
E 5 HOH A 118 618 134 HOH HOH . 
E 5 HOH A 119 619 135 HOH HOH . 
E 5 HOH A 120 620 136 HOH HOH . 
E 5 HOH A 121 621 137 HOH HOH . 
E 5 HOH A 122 622 138 HOH HOH . 
E 5 HOH A 123 623 139 HOH HOH . 
E 5 HOH A 124 624 140 HOH HOH . 
E 5 HOH A 125 625 142 HOH HOH . 
E 5 HOH A 126 626 143 HOH HOH . 
E 5 HOH A 127 627 144 HOH HOH . 
E 5 HOH A 128 628 145 HOH HOH . 
E 5 HOH A 129 629 146 HOH HOH . 
E 5 HOH A 130 630 147 HOH HOH . 
E 5 HOH A 131 631 148 HOH HOH . 
E 5 HOH A 132 632 149 HOH HOH . 
E 5 HOH A 133 633 150 HOH HOH . 
E 5 HOH A 134 634 151 HOH HOH . 
E 5 HOH A 135 635 152 HOH HOH . 
E 5 HOH A 136 636 153 HOH HOH . 
E 5 HOH A 137 637 154 HOH HOH . 
E 5 HOH A 138 638 155 HOH HOH . 
E 5 HOH A 139 639 157 HOH HOH . 
E 5 HOH A 140 640 158 HOH HOH . 
E 5 HOH A 141 641 159 HOH HOH . 
E 5 HOH A 142 642 160 HOH HOH . 
E 5 HOH A 143 643 161 HOH HOH . 
E 5 HOH A 144 644 162 HOH HOH . 
E 5 HOH A 145 645 163 HOH HOH . 
E 5 HOH A 146 646 164 HOH HOH . 
E 5 HOH A 147 647 166 HOH HOH . 
E 5 HOH A 148 648 167 HOH HOH . 
E 5 HOH A 149 649 168 HOH HOH . 
E 5 HOH A 150 650 169 HOH HOH . 
E 5 HOH A 151 651 170 HOH HOH . 
E 5 HOH A 152 652 171 HOH HOH . 
E 5 HOH A 153 653 172 HOH HOH . 
E 5 HOH A 154 654 173 HOH HOH . 
E 5 HOH A 155 655 174 HOH HOH . 
E 5 HOH A 156 656 175 HOH HOH . 
E 5 HOH A 157 657 177 HOH HOH . 
E 5 HOH A 158 658 178 HOH HOH . 
F 5 HOH B 1 101 13 HOH HOH . 
F 5 HOH B 2 102 16 HOH HOH . 
F 5 HOH B 3 103 22 HOH HOH . 
F 5 HOH B 4 104 32 HOH HOH . 
F 5 HOH B 5 105 42 HOH HOH . 
F 5 HOH B 6 106 48 HOH HOH . 
F 5 HOH B 7 107 58 HOH HOH . 
F 5 HOH B 8 108 59 HOH HOH . 
F 5 HOH B 9 109 65 HOH HOH . 
F 5 HOH B 10 110 69 HOH HOH . 
F 5 HOH B 11 111 79 HOH HOH . 
F 5 HOH B 12 112 91 HOH HOH . 
F 5 HOH B 13 113 108 HOH HOH . 
F 5 HOH B 14 114 113 HOH HOH . 
F 5 HOH B 15 115 122 HOH HOH . 
F 5 HOH B 16 116 129 HOH HOH . 
F 5 HOH B 17 117 141 HOH HOH . 
F 5 HOH B 18 118 156 HOH HOH . 
F 5 HOH B 19 119 165 HOH HOH . 
F 5 HOH B 20 120 176 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 . . . D 4 -7.911 3.989 -18.327 1 28.78 ? C1 MPD 402 A 1 
HETATM 2 C C2 MPD . . . D 4 -7.326 3.923 -16.93 1 29.67 ? C2 MPD 402 A 1 
HETATM 3 O O2 MPD . . . D 4 -7.699 2.633 -16.395 1 31.14 ? O2 MPD 402 A 1 
HETATM 4 C CM MPD . . . D 4 -5.816 4.078 -17.031 1 29.79 ? CM MPD 402 A 1 
HETATM 5 C C3 MPD . . . D 4 -7.869 4.962 -15.938 1 29.93 ? C3 MPD 402 A 1 
HETATM 6 C C4 MPD . . . D 4 -8.646 6.125 -16.537 1 30.19 ? C4 MPD 402 A 1 
HETATM 7 O O4 MPD . . . D 4 -9.862 5.682 -17.14 1 30.33 ? O4 MPD 402 A 1 
HETATM 8 C C5 MPD . . . D 4 -8.998 7.126 -15.461 1 29.45 ? C5 MPD 402 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           356 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           8 
#