data_6VUG # _model_server_result.job_id 7qshyTPAsdfJj5kb8qU3vQ _model_server_result.datetime_utc '2025-01-25 13:30:43' _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 6vug # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":509}' # _entry.id 6VUG # _exptl.entry_id 6VUG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 7 _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 90 _cell.entry_id 6VUG _cell.length_a 85.876 _cell.length_b 238.103 _cell.length_c 211.711 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VUG _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,J,K,L,M,N,O,P,Q _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 7 _struct_asym.id N _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 disulf ? disulf1 C SG CYS 28 C CYS 152 1_555 C SG CYS 93 C CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 D SG CYS 23 D CYS 23 1_555 D SG CYS 98 D CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 D SG CYS 87 D CYS 87 1_555 D SG CYS 87 D CYS 87 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 E O3' DC 6 E DC 1 1_555 E P OMC 7 E OMC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale2 E O3' OMC 7 E OMC 2 1_555 E P DC 8 E DC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? covale ? covale3 E O3' DC 8 E DC 3 1_555 E P OMC 9 E OMC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale4 E O3' OMC 9 E OMC 4 1_555 E P DC 10 E DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? hydrog WATSON-CRICK hydrog1 E N3 DC 6 E DC 1 1_555 E N1 DG 38 E DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 E N4 DC 6 E DC 1 1_555 E O6 DG 38 E DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 E O2 DC 6 E DC 1 1_555 E N2 DG 38 E DG 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 E N3 OMC 7 E OMC 2 1_555 E N1 DG 37 E DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 E N4 OMC 7 E OMC 2 1_555 E O6 DG 37 E DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 E O2 OMC 7 E OMC 2 1_555 E N2 DG 37 E DG 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 E N3 DC 8 E DC 3 1_555 E N1 DG 36 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 E N4 DC 8 E DC 3 1_555 E O6 DG 36 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 E O2 DC 8 E DC 3 1_555 E N2 DG 36 E DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 E N3 OMC 9 E OMC 4 1_555 E N1 DG 35 E DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 E N4 OMC 9 E OMC 4 1_555 E O6 DG 35 E DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 E O2 OMC 9 E OMC 4 1_555 E N2 DG 35 E DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 E N3 DC 10 E DC 5 1_555 E N1 DG 34 E DG 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 E N4 DC 10 E DC 5 1_555 E O6 DG 34 E DG 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 E O2 DC 10 E DC 5 1_555 E N2 DG 34 E DG 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 E N3 DC 11 E DC 6 1_555 E N1 DG 33 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 E N4 DC 11 E DC 6 1_555 E O6 DG 33 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 E O2 DC 11 E DC 6 1_555 E N2 DG 33 E DG 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 E N3 DC 12 E DC 7 1_555 E N1 DG 32 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 E N4 DC 12 E DC 7 1_555 E O6 DG 32 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 E O2 DC 12 E DC 7 1_555 E N2 DG 32 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 E N3 DT 13 E DT 8 1_555 E N1 DA 31 E DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 E O4 DT 13 E DT 8 1_555 E N6 DA 31 E DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 E N3 DT 14 E DT 9 1_555 E N1 DA 30 E DA 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 E O4 DT 14 E DT 9 1_555 E N6 DA 30 E DA 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 E N3 DC 15 E DC 10 1_555 E N1 DG 29 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 E N4 DC 15 E DC 10 1_555 E O6 DG 29 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 E O2 DC 15 E DC 10 1_555 E N2 DG 29 E DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 E N1 DG 16 E DG 11 1_555 E N3 DC 28 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 E N2 DG 16 E DG 11 1_555 E O2 DC 28 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 E O6 DG 16 E DG 11 1_555 E N4 DC 28 E DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 E N1 DG 17 E DG 12 1_555 E N3 DC 27 E DC 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 E N2 DG 17 E DG 12 1_555 E O2 DC 27 E DC 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 E O6 DG 17 E DG 12 1_555 E N4 DC 27 E DC 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 E N3 DT 18 E DT 13 1_555 E N1 DA 26 E DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 E O4 DT 18 E DT 13 1_555 E N6 DA 26 E DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 E N1 DG 19 E DG 14 1_555 E N3 DC 25 E DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 E N2 DG 19 E DG 14 1_555 E O2 DC 25 E DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 E O6 DG 19 E DG 14 1_555 E N4 DC 25 E DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 E N3 DC 20 E DC 15 1_555 E N1 DG 24 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 E N4 DC 20 E DC 15 1_555 E O6 DG 24 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 E O2 DC 20 E DC 15 1_555 E N2 DG 24 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 278 n n C1 C2 GOL sing 279 n n C1 H11 GOL sing 280 n n C1 H12 GOL sing 281 n n O1 HO1 GOL sing 282 n n C2 O2 GOL sing 283 n n C2 C3 GOL sing 284 n n C2 H2 GOL sing 285 n n O2 HO2 GOL sing 286 n n C3 O3 GOL sing 287 n n C3 H31 GOL sing 288 n n C3 H32 GOL sing 289 n n O3 HO3 GOL sing 290 n n # _atom_sites.entry_id 6VUG _atom_sites.fract_transf_matrix[1][1] 0.011645 _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] 0.0042 _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] 0.004723 _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 F 6 SO4 B 1 501 1 SO4 SO4 . G 6 SO4 B 1 502 2 SO4 SO4 . H 6 SO4 B 1 503 3 SO4 SO4 . I 6 SO4 B 1 504 4 SO4 SO4 . J 6 SO4 B 1 505 5 SO4 SO4 . K 6 SO4 B 1 506 13 SO4 SO4 . L 6 SO4 B 1 507 15 SO4 SO4 . M 6 SO4 B 1 508 16 SO4 SO4 . N 7 GOL B 1 509 1 GOL GOL . O 6 SO4 C 1 301 6 SO4 SO4 . P 6 SO4 C 1 302 8 SO4 SO4 . Q 6 SO4 C 1 303 18 SO4 SO4 . # 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 . . . N 7 -45.881 -43.392 32.286 1 70.62 ? C1 GOL 509 B 1 HETATM 2 O O1 GOL . . . N 7 -45.74 -44.446 33.19 1 53.94 ? O1 GOL 509 B 1 HETATM 3 C C2 GOL . . . N 7 -46.39 -44.004 30.956 1 72.76 ? C2 GOL 509 B 1 HETATM 4 O O2 GOL . . . N 7 -45.376 -44.633 30.242 1 58.95 ? O2 GOL 509 B 1 HETATM 5 C C3 GOL . . . N 7 -47.012 -42.819 30.18 1 55.86 ? C3 GOL 509 B 1 HETATM 6 O O3 GOL . . . N 7 -47.761 -43.377 29.145 1 52.78 ? O3 GOL 509 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #