data_6JVW # _model_server_result.job_id LJeRyTmAKmaAAfjGg2NTNw _model_server_result.datetime_utc '2025-07-07 23:27:59' _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 6jvw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 6JVW # _exptl.entry_id 6JVW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _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 119.07 _cell.angle_gamma 90 _cell.entry_id 6JVW _cell.length_a 68.409 _cell.length_b 74.181 _cell.length_c 68.727 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JVW _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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,F,G,H,I _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 F _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 OE1 GLU 132 A GLU 132 1_555 D MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc2 A OE2 GLU 134 A GLU 134 1_555 D MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc3 A OD2 ASP 163 A ASP 163 1_555 D MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc4 C OXT PYR . A PYR 401 1_555 D MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc5 C O3 PYR . A PYR 401 1_555 D MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc6 D MN MN . A MN 402 1_555 H O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc7 B OE1 GLU 132 B GLU 132 1_555 G MN MN . B MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc8 B OE2 GLU 134 B GLU 134 1_555 G MN MN . B MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc9 B OD2 ASP 163 B ASP 163 1_555 G MN MN . B MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc10 E O PYR . B PYR 401 1_555 G MN MN . B MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc11 E O3 PYR . B PYR 401 1_555 G MN MN . B MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc12 G MN MN . B MN 403 1_555 I O HOH . B HOH 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? # _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 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 6JVW _atom_sites.fract_transf_matrix[1][1] 0.014618 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008127 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013481 _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] 0.016648 _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 2 PYR A 1 401 301 PYR PYR . D 3 MN A 1 402 1 MN MN . E 2 PYR B 1 401 301 PYR PYR . F 4 GOL B 1 402 1 GOL GOL . G 3 MN B 1 403 2 MN MN . H 5 HOH A 1 501 17 HOH HOH . H 5 HOH A 2 502 10 HOH HOH . H 5 HOH A 3 503 2 HOH HOH . H 5 HOH A 4 504 124 HOH HOH . H 5 HOH A 5 505 54 HOH HOH . H 5 HOH A 6 506 62 HOH HOH . H 5 HOH A 7 507 64 HOH HOH . H 5 HOH A 8 508 81 HOH HOH . H 5 HOH A 9 509 101 HOH HOH . H 5 HOH A 10 510 84 HOH HOH . H 5 HOH A 11 511 100 HOH HOH . H 5 HOH A 12 512 86 HOH HOH . H 5 HOH A 13 513 71 HOH HOH . H 5 HOH A 14 514 25 HOH HOH . H 5 HOH A 15 515 37 HOH HOH . H 5 HOH A 16 516 70 HOH HOH . H 5 HOH A 17 517 95 HOH HOH . H 5 HOH A 18 518 47 HOH HOH . H 5 HOH A 19 519 72 HOH HOH . H 5 HOH A 20 520 80 HOH HOH . H 5 HOH A 21 521 66 HOH HOH . H 5 HOH A 22 522 82 HOH HOH . H 5 HOH A 23 523 103 HOH HOH . H 5 HOH A 24 524 53 HOH HOH . H 5 HOH A 25 525 36 HOH HOH . H 5 HOH A 26 526 33 HOH HOH . H 5 HOH A 27 527 106 HOH HOH . H 5 HOH A 28 528 76 HOH HOH . H 5 HOH A 29 529 50 HOH HOH . H 5 HOH A 30 530 115 HOH HOH . H 5 HOH A 31 531 120 HOH HOH . H 5 HOH A 32 532 110 HOH HOH . H 5 HOH A 33 533 98 HOH HOH . H 5 HOH A 34 534 75 HOH HOH . H 5 HOH A 35 535 34 HOH HOH . H 5 HOH A 36 536 68 HOH HOH . H 5 HOH A 37 537 117 HOH HOH . H 5 HOH A 38 538 99 HOH HOH . H 5 HOH A 39 539 32 HOH HOH . H 5 HOH A 40 540 119 HOH HOH . H 5 HOH A 41 541 114 HOH HOH . H 5 HOH A 42 542 16 HOH HOH . H 5 HOH A 43 543 85 HOH HOH . H 5 HOH A 44 544 108 HOH HOH . H 5 HOH A 45 545 51 HOH HOH . H 5 HOH A 46 546 111 HOH HOH . H 5 HOH A 47 547 92 HOH HOH . H 5 HOH A 48 548 102 HOH HOH . H 5 HOH A 49 549 125 HOH HOH . H 5 HOH A 50 550 19 HOH HOH . H 5 HOH A 51 551 104 HOH HOH . I 5 HOH B 1 501 91 HOH HOH . I 5 HOH B 2 502 61 HOH HOH . I 5 HOH B 3 503 83 HOH HOH . I 5 HOH B 4 504 77 HOH HOH . I 5 HOH B 5 505 58 HOH HOH . I 5 HOH B 6 506 89 HOH HOH . I 5 HOH B 7 507 118 HOH HOH . I 5 HOH B 8 508 41 HOH HOH . I 5 HOH B 9 509 74 HOH HOH . I 5 HOH B 10 510 5 HOH HOH . I 5 HOH B 11 511 93 HOH HOH . I 5 HOH B 12 512 6 HOH HOH . I 5 HOH B 13 513 73 HOH HOH . I 5 HOH B 14 514 27 HOH HOH . I 5 HOH B 15 515 13 HOH HOH . I 5 HOH B 16 516 57 HOH HOH . I 5 HOH B 17 517 60 HOH HOH . I 5 HOH B 18 518 59 HOH HOH . I 5 HOH B 19 519 87 HOH HOH . I 5 HOH B 20 520 30 HOH HOH . I 5 HOH B 21 521 29 HOH HOH . I 5 HOH B 22 522 4 HOH HOH . I 5 HOH B 23 523 14 HOH HOH . I 5 HOH B 24 524 22 HOH HOH . I 5 HOH B 25 525 121 HOH HOH . I 5 HOH B 26 526 15 HOH HOH . I 5 HOH B 27 527 1 HOH HOH . I 5 HOH B 28 528 107 HOH HOH . I 5 HOH B 29 529 113 HOH HOH . I 5 HOH B 30 530 21 HOH HOH . I 5 HOH B 31 531 65 HOH HOH . I 5 HOH B 32 532 105 HOH HOH . I 5 HOH B 33 533 44 HOH HOH . I 5 HOH B 34 534 79 HOH HOH . I 5 HOH B 35 535 96 HOH HOH . I 5 HOH B 36 536 39 HOH HOH . I 5 HOH B 37 537 20 HOH HOH . I 5 HOH B 38 538 97 HOH HOH . I 5 HOH B 39 539 42 HOH HOH . I 5 HOH B 40 540 49 HOH HOH . I 5 HOH B 41 541 48 HOH HOH . I 5 HOH B 42 542 67 HOH HOH . I 5 HOH B 43 543 109 HOH HOH . I 5 HOH B 44 544 46 HOH HOH . I 5 HOH B 45 545 26 HOH HOH . I 5 HOH B 46 546 28 HOH HOH . I 5 HOH B 47 547 78 HOH HOH . I 5 HOH B 48 548 18 HOH HOH . I 5 HOH B 49 549 11 HOH HOH . I 5 HOH B 50 550 31 HOH HOH . I 5 HOH B 51 551 90 HOH HOH . I 5 HOH B 52 552 9 HOH HOH . I 5 HOH B 53 553 56 HOH HOH . I 5 HOH B 54 554 12 HOH HOH . I 5 HOH B 55 555 43 HOH HOH . I 5 HOH B 56 556 69 HOH HOH . I 5 HOH B 57 557 94 HOH HOH . I 5 HOH B 58 558 122 HOH HOH . I 5 HOH B 59 559 3 HOH HOH . I 5 HOH B 60 560 35 HOH HOH . I 5 HOH B 61 561 8 HOH HOH . I 5 HOH B 62 562 116 HOH HOH . I 5 HOH B 63 563 38 HOH HOH . I 5 HOH B 64 564 7 HOH HOH . I 5 HOH B 65 565 24 HOH HOH . I 5 HOH B 66 566 112 HOH HOH . I 5 HOH B 67 567 23 HOH HOH . I 5 HOH B 68 568 55 HOH HOH . I 5 HOH B 69 569 45 HOH HOH . I 5 HOH B 70 570 52 HOH HOH . I 5 HOH B 71 571 40 HOH HOH . I 5 HOH B 72 572 63 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 . . . F 4 27.199 32.423 44.825 1 33.2 ? C1 GOL 402 B 1 HETATM 2 O O1 GOL . . . F 4 27.618 31.661 43.708 1 37.82 ? O1 GOL 402 B 1 HETATM 3 C C2 GOL . . . F 4 25.705 32.618 44.8 1 32.08 ? C2 GOL 402 B 1 HETATM 4 O O2 GOL . . . F 4 25.196 32.114 46.034 1 30.74 ? O2 GOL 402 B 1 HETATM 5 C C3 GOL . . . F 4 25.305 34.067 44.548 1 35.7 ? C3 GOL 402 B 1 HETATM 6 O O3 GOL . . . F 4 24.336 34.218 43.501 1 30.03 ? O3 GOL 402 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #