data_5VXE
#
_model_server_result.job_id            b7As_McwKmKoPxhByY66_A 
_model_server_result.datetime_utc      '2024-11-24 14:59:37' 
_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          5vxe 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    5VXE 
#
_exptl.entry_id    5VXE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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            5VXE 
_cell.length_a            89.965 
_cell.length_b            89.965 
_cell.length_c            69.577 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VXE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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    1,2 
#
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' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 46.384667 
#
_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 ND1 HIS 38 A HIS 38 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc2 A OD1 ASP 76 A ASP 76 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc3 D MN MN . A MN 403 1_555 E O HOH . A HOH 508 2_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc4 D MN MN . A MN 403 1_555 E O HOH . A HOH 516 2_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? 
metalc ? metalc5 D MN MN . A MN 403 1_555 E O HOH . A HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc6 D MN MN . A MN 403 1_555 E O HOH . A HOH 554 2_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 O1 GOL sing 163 n n 
C1 C2 GOL sing 164 n n 
C1 H11 GOL sing 165 n n 
C1 H12 GOL sing 166 n n 
O1 HO1 GOL sing 167 n n 
C2 O2 GOL sing 168 n n 
C2 C3 GOL sing 169 n n 
C2 H2 GOL sing 170 n n 
O2 HO2 GOL sing 171 n n 
C3 O3 GOL sing 172 n n 
C3 H31 GOL sing 173 n n 
C3 H32 GOL sing 174 n n 
O3 HO3 GOL sing 175 n n 
#
_atom_sites.entry_id                     5VXE 
_atom_sites.fract_transf_matrix[1][1]    0.011115 
_atom_sites.fract_transf_matrix[1][2]    0.006417 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012835 
_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]    0.014373 
_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 CER A 1 401 1 CER CER . 
C 3 GOL A 1 402 1 GOL GOL . 
D 4 MN A 1 403 1 MN MN . 
E 5 HOH A 1 501 3 HOH HOH . 
E 5 HOH A 2 502 3 HOH HOH . 
E 5 HOH A 3 503 57 HOH HOH . 
E 5 HOH A 4 504 1 HOH HOH . 
E 5 HOH A 5 505 1 HOH HOH . 
E 5 HOH A 6 506 40 HOH HOH . 
E 5 HOH A 7 507 30 HOH HOH . 
E 5 HOH A 8 508 2 HOH HOH . 
E 5 HOH A 9 509 32 HOH HOH . 
E 5 HOH A 10 510 44 HOH HOH . 
E 5 HOH A 11 511 26 HOH HOH . 
E 5 HOH A 12 512 6 HOH HOH . 
E 5 HOH A 13 513 37 HOH HOH . 
E 5 HOH A 14 514 2 HOH HOH . 
E 5 HOH A 15 515 39 HOH HOH . 
E 5 HOH A 16 516 1 HOH HOH . 
E 5 HOH A 17 517 4 HOH HOH . 
E 5 HOH A 18 518 2 HOH HOH . 
E 5 HOH A 19 519 1 HOH HOH . 
E 5 HOH A 20 520 4 HOH HOH . 
E 5 HOH A 21 521 7 HOH HOH . 
E 5 HOH A 22 522 34 HOH HOH . 
E 5 HOH A 23 523 14 HOH HOH . 
E 5 HOH A 24 524 6 HOH HOH . 
E 5 HOH A 25 525 56 HOH HOH . 
E 5 HOH A 26 526 1 HOH HOH . 
E 5 HOH A 27 527 33 HOH HOH . 
E 5 HOH A 28 528 4 HOH HOH . 
E 5 HOH A 29 529 19 HOH HOH . 
E 5 HOH A 30 530 5 HOH HOH . 
E 5 HOH A 31 531 3 HOH HOH . 
E 5 HOH A 32 532 52 HOH HOH . 
E 5 HOH A 33 533 8 HOH HOH . 
E 5 HOH A 34 534 41 HOH HOH . 
E 5 HOH A 35 535 29 HOH HOH . 
E 5 HOH A 36 536 5 HOH HOH . 
E 5 HOH A 37 537 5 HOH HOH . 
E 5 HOH A 38 538 9 HOH HOH . 
E 5 HOH A 39 539 38 HOH HOH . 
E 5 HOH A 40 540 2 HOH HOH . 
E 5 HOH A 41 541 5 HOH HOH . 
E 5 HOH A 42 542 4 HOH HOH . 
E 5 HOH A 43 543 16 HOH HOH . 
E 5 HOH A 44 544 2 HOH HOH . 
E 5 HOH A 45 545 6 HOH HOH . 
E 5 HOH A 46 546 17 HOH HOH . 
E 5 HOH A 47 547 48 HOH HOH . 
E 5 HOH A 48 548 21 HOH HOH . 
E 5 HOH A 49 549 1 HOH HOH . 
E 5 HOH A 50 550 5 HOH HOH . 
E 5 HOH A 51 551 46 HOH HOH . 
E 5 HOH A 52 552 4 HOH HOH . 
E 5 HOH A 53 553 13 HOH HOH . 
E 5 HOH A 54 554 3 HOH HOH . 
E 5 HOH A 55 555 2 HOH HOH . 
E 5 HOH A 56 556 1 HOH HOH . 
E 5 HOH A 57 557 1 HOH HOH . 
E 5 HOH A 58 558 45 HOH HOH . 
E 5 HOH A 59 559 20 HOH HOH . 
E 5 HOH A 60 560 1 HOH HOH . 
E 5 HOH A 61 561 47 HOH HOH . 
E 5 HOH A 62 562 1 HOH HOH . 
E 5 HOH A 63 563 25 HOH HOH . 
E 5 HOH A 64 564 3 HOH HOH . 
E 5 HOH A 65 565 1 HOH HOH . 
E 5 HOH A 66 566 4 HOH HOH . 
E 5 HOH A 67 567 36 HOH HOH . 
E 5 HOH A 68 568 6 HOH HOH . 
E 5 HOH A 69 569 2 HOH HOH . 
E 5 HOH A 70 570 3 HOH HOH . 
E 5 HOH A 71 571 50 HOH HOH . 
E 5 HOH A 72 572 22 HOH HOH . 
E 5 HOH A 73 573 3 HOH HOH . 
E 5 HOH A 74 574 2 HOH HOH . 
E 5 HOH A 75 575 3 HOH HOH . 
E 5 HOH A 76 576 31 HOH HOH . 
E 5 HOH A 77 577 42 HOH HOH . 
E 5 HOH A 78 578 24 HOH HOH . 
E 5 HOH A 79 579 6 HOH HOH . 
E 5 HOH A 80 580 2 HOH HOH . 
E 5 HOH A 81 581 15 HOH HOH . 
E 5 HOH A 82 582 35 HOH HOH . 
E 5 HOH A 83 583 7 HOH HOH . 
E 5 HOH A 84 584 5 HOH HOH . 
E 5 HOH A 85 585 10 HOH HOH . 
E 5 HOH A 86 586 11 HOH HOH . 
E 5 HOH A 87 587 49 HOH HOH . 
E 5 HOH A 88 588 12 HOH HOH . 
E 5 HOH A 89 589 43 HOH HOH . 
E 5 HOH A 90 590 23 HOH HOH . 
E 5 HOH A 91 591 54 HOH HOH . 
E 5 HOH A 92 592 51 HOH HOH . 
E 5 HOH A 93 593 8 HOH HOH . 
E 5 HOH A 94 594 4 HOH HOH . 
E 5 HOH A 95 595 7 HOH HOH . 
E 5 HOH A 96 596 27 HOH HOH . 
E 5 HOH A 97 597 55 HOH HOH . 
E 5 HOH A 98 598 9 HOH HOH . 
E 5 HOH A 99 599 1 HOH HOH . 
E 5 HOH A 100 600 1 HOH HOH . 
E 5 HOH A 101 601 12 HOH HOH . 
E 5 HOH A 102 602 53 HOH HOH . 
E 5 HOH A 103 603 5 HOH HOH . 
E 5 HOH A 104 604 1 HOH HOH . 
E 5 HOH A 105 605 9 HOH HOH . 
E 5 HOH A 106 606 28 HOH HOH . 
E 5 HOH A 107 607 1 HOH HOH . 
E 5 HOH A 108 608 7 HOH HOH . 
E 5 HOH A 109 609 1 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 GOL . . . C 3 -1.16 -38.541 11.193 1 56.76 ? C1 GOL 402 A 1 
HETATM 2 O O1 GOL . . . C 3 -1.643 -37.403 11.982 1 41.58 ? O1 GOL 402 A 1 
HETATM 3 C C2 GOL . . . C 3 -1.201 -39.851 11.992 1 55.03 ? C2 GOL 402 A 1 
HETATM 4 O O2 GOL . . . C 3 -2.339 -39.675 12.824 1 48.53 ? O2 GOL 402 A 1 
HETATM 5 C C3 GOL . . . C 3 -1.448 -41.145 11.19 1 48.27 ? C3 GOL 402 A 1 
HETATM 6 O O3 GOL . . . C 3 -0.295 -41.948 10.727 1 38.26 ? O3 GOL 402 A 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#