data_8VCD # _model_server_result.job_id s84R0dCji3fQoc6uj6XGHg _model_server_result.datetime_utc '2024-10-12 21:18:50' _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 8vcd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8VCD # _exptl.entry_id 8VCD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 90 _cell.entry_id 8VCD _cell.length_a 84.34 _cell.length_b 84.34 _cell.length_c 117.44 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VCD _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # _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 ? 2 B N N ? 2 C N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 169 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 169 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id C06 _struct_conn.ptnr2_label_comp_id VTY _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id VTY _struct_conn.ptnr2_auth_seq_id 403 _struct_conn.ptnr2_symmetry 1_555 _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 1.376 _struct_conn.pdbx_value_order ? # _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 8VCD _atom_sites.fract_transf_matrix[1][1] 0.011857 _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] 0.011857 _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] 0.008515 _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 GOL A 1 401 401 GOL GOL . C 2 GOL A 1 402 403 GOL GOL . D 3 VTY A 1 403 400 VTY VTY . E 4 HOH A 1 501 547 HOH HOH . E 4 HOH A 2 502 597 HOH HOH . E 4 HOH A 3 503 541 HOH HOH . E 4 HOH A 4 504 543 HOH HOH . E 4 HOH A 5 505 525 HOH HOH . E 4 HOH A 6 506 522 HOH HOH . E 4 HOH A 7 507 567 HOH HOH . E 4 HOH A 8 508 554 HOH HOH . E 4 HOH A 9 509 507 HOH HOH . E 4 HOH A 10 510 520 HOH HOH . E 4 HOH A 11 511 545 HOH HOH . E 4 HOH A 12 512 514 HOH HOH . E 4 HOH A 13 513 523 HOH HOH . E 4 HOH A 14 514 539 HOH HOH . E 4 HOH A 15 515 602 HOH HOH . E 4 HOH A 16 516 560 HOH HOH . E 4 HOH A 17 517 540 HOH HOH . E 4 HOH A 18 518 511 HOH HOH . E 4 HOH A 19 519 504 HOH HOH . E 4 HOH A 20 520 556 HOH HOH . E 4 HOH A 21 521 549 HOH HOH . E 4 HOH A 22 522 546 HOH HOH . E 4 HOH A 23 523 553 HOH HOH . E 4 HOH A 24 524 562 HOH HOH . E 4 HOH A 25 525 502 HOH HOH . E 4 HOH A 26 526 501 HOH HOH . E 4 HOH A 27 527 509 HOH HOH . E 4 HOH A 28 528 506 HOH HOH . E 4 HOH A 29 529 503 HOH HOH . E 4 HOH A 30 530 516 HOH HOH . E 4 HOH A 31 531 531 HOH HOH . E 4 HOH A 32 532 544 HOH HOH . E 4 HOH A 33 533 595 HOH HOH . E 4 HOH A 34 534 557 HOH HOH . E 4 HOH A 35 535 515 HOH HOH . E 4 HOH A 36 536 521 HOH HOH . E 4 HOH A 37 537 598 HOH HOH . E 4 HOH A 38 538 551 HOH HOH . E 4 HOH A 39 539 530 HOH HOH . E 4 HOH A 40 540 573 HOH HOH . E 4 HOH A 41 541 579 HOH HOH . E 4 HOH A 42 542 529 HOH HOH . E 4 HOH A 43 543 576 HOH HOH . E 4 HOH A 44 544 534 HOH HOH . E 4 HOH A 45 545 538 HOH HOH . E 4 HOH A 46 546 536 HOH HOH . E 4 HOH A 47 547 518 HOH HOH . E 4 HOH A 48 548 593 HOH HOH . E 4 HOH A 49 549 599 HOH HOH . E 4 HOH A 50 550 566 HOH HOH . E 4 HOH A 51 551 592 HOH HOH . E 4 HOH A 52 552 601 HOH HOH . E 4 HOH A 53 553 535 HOH HOH . E 4 HOH A 54 554 563 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 . . . B 2 0.296 12.202 16.799 1 36.69 ? C1 GOL 401 A 1 HETATM 2 O O1 GOL . . . B 2 1.457 11.442 16.806 1 39.19 ? O1 GOL 401 A 1 HETATM 3 C C2 GOL . . . B 2 -0.667 11.491 17.763 1 47.94 ? C2 GOL 401 A 1 HETATM 4 O O2 GOL . . . B 2 -0.87 12.223 18.913 1 45.21 ? O2 GOL 401 A 1 HETATM 5 C C3 GOL . . . B 2 -1.96 11.271 16.955 1 39.15 ? C3 GOL 401 A 1 HETATM 6 O O3 GOL . . . B 2 -1.589 10.65 15.759 1 42.61 ? O3 GOL 401 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 75 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 411 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #