data_4UBU # _model_server_result.job_id ohK2dqQjNxPgOt4QnNIzkA _model_server_result.datetime_utc '2025-03-06 09:16:28' _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 4ubu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":402}' # _entry.id 4UBU # _exptl.entry_id 4UBU _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 107.33 _cell.angle_gamma 90 _cell.entry_id 4UBU _cell.length_a 127.61 _cell.length_b 105.16 _cell.length_c 147.66 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UBU _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 PISA dimeric 2 software_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression G,P,Q,R,Z 1 1 E,M,N,X 1 2 E,M,N,X 2 1 G,P,Q,R,Z 2 3 A,D,I,L,U 3 1 B,C,J,K,V,W 4 1 F,H,O,S,T,Y,AA 5 1 # 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' 2_645 -x+1,y-1/2,-z -1 0 0 0 1 0 0 0 -1 127.61 -52.58 0 3 'crystal symmetry operation' 2_655 -x+1,y+1/2,-z -1 0 0 0 1 0 0 0 -1 127.61 52.58 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 N N N ? 3 Q N N ? 3 R N N ? 3 T N 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 GLN 100 A GLN 92 1_555 A N OAS 101 A OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 A C OAS 101 A OAS 93 1_555 A N GLY 102 A GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 B C GLN 100 B GLN 92 1_555 B N OAS 101 B OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 B C OAS 101 B OAS 93 1_555 B N GLY 102 B GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale5 C C GLN 100 C GLN 92 1_555 C N OAS 101 C OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale6 C C OAS 101 C OAS 93 1_555 C N GLY 102 C GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 D C GLN 100 D GLN 92 1_555 D N OAS 101 D OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale8 D C OAS 101 D OAS 93 1_555 D N GLY 102 D GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale9 E C GLN 100 E GLN 92 1_555 E N OAS 101 E OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? covale ? covale10 E C OAS 101 E OAS 93 1_555 E N GLY 102 E GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale11 F C GLN 100 F GLN 92 1_555 F N OAS 101 F OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale12 F C OAS 101 F OAS 93 1_555 F N GLY 102 F GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale13 G C GLN 100 G GLN 92 1_555 G N OAS 101 G OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale14 G C OAS 101 G OAS 93 1_555 G N GLY 102 G GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale15 H C GLN 100 H GLN 92 1_555 H N OAS 101 H OAS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale16 H C OAS 101 H OAS 93 1_555 H N GLY 102 H GLY 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? # _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 215 n n C1 C2 GOL sing 216 n n C1 H11 GOL sing 217 n n C1 H12 GOL sing 218 n n O1 HO1 GOL sing 219 n n C2 O2 GOL sing 220 n n C2 C3 GOL sing 221 n n C2 H2 GOL sing 222 n n O2 HO2 GOL sing 223 n n C3 O3 GOL sing 224 n n C3 H31 GOL sing 225 n n C3 H32 GOL sing 226 n n O3 HO3 GOL sing 227 n n # _atom_sites.entry_id 4UBU _atom_sites.fract_transf_matrix[1][1] 0.007836 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002445 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009509 _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] 0.007094 _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 I 2 COA A 1 400 400 COA COA . J 2 COA B 1 400 400 COA COA . K 2 COA C 1 400 400 COA COA . L 2 COA D 1 400 400 COA COA . M 2 COA E 1 401 400 COA COA . N 3 GOL E 1 402 4 GOL GOL . O 2 COA F 1 400 400 COA COA . P 2 COA G 1 401 400 COA COA . Q 3 GOL G 1 402 1 GOL GOL . R 3 GOL G 1 403 3 GOL GOL . S 2 COA H 1 401 400 COA COA . T 3 GOL H 1 402 2 GOL GOL . U 4 HOH A 1 501 12 HOH HOH . U 4 HOH A 2 502 1 HOH HOH . U 4 HOH A 3 503 4 HOH HOH . U 4 HOH A 4 504 5 HOH HOH . U 4 HOH A 5 505 9 HOH HOH . U 4 HOH A 6 506 3 HOH HOH . U 4 HOH A 7 507 11 HOH HOH . U 4 HOH A 8 508 7 HOH HOH . U 4 HOH A 9 509 8 HOH HOH . V 4 HOH B 1 501 20 HOH HOH . V 4 HOH B 2 502 19 HOH HOH . V 4 HOH B 3 503 21 HOH HOH . V 4 HOH B 4 504 42 HOH HOH . V 4 HOH B 5 505 13 HOH HOH . V 4 HOH B 6 506 16 HOH HOH . W 4 HOH C 1 501 26 HOH HOH . W 4 HOH C 2 502 23 HOH HOH . W 4 HOH C 3 503 17 HOH HOH . W 4 HOH C 4 504 25 HOH HOH . W 4 HOH C 5 505 43 HOH HOH . X 4 HOH E 1 501 18 HOH HOH . X 4 HOH E 2 502 22 HOH HOH . X 4 HOH E 3 503 44 HOH HOH . Y 4 HOH F 1 501 35 HOH HOH . Y 4 HOH F 2 502 38 HOH HOH . Y 4 HOH F 3 503 39 HOH HOH . Y 4 HOH F 4 504 28 HOH HOH . Y 4 HOH F 5 505 37 HOH HOH . Y 4 HOH F 6 506 29 HOH HOH . Y 4 HOH F 7 507 30 HOH HOH . Y 4 HOH F 8 508 27 HOH HOH . Y 4 HOH F 9 509 32 HOH HOH . Y 4 HOH F 10 510 36 HOH HOH . Y 4 HOH F 11 511 31 HOH HOH . Y 4 HOH F 12 512 33 HOH HOH . Y 4 HOH F 13 513 34 HOH HOH . Z 4 HOH G 1 501 40 HOH HOH . AA 4 HOH H 1 501 41 HOH HOH . AA 4 HOH H 2 502 24 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 . . . Q 3 13.377 -46.463 18.425 1 65.77 ? C1 GOL 402 G 1 HETATM 2 O O1 GOL . . . Q 3 12.292 -46.13 17.599 1 60.89 ? O1 GOL 402 G 1 HETATM 3 C C2 GOL . . . Q 3 13.531 -45.753 19.766 1 67.8 ? C2 GOL 402 G 1 HETATM 4 O O2 GOL . . . Q 3 12.671 -44.665 19.937 1 73.92 ? O2 GOL 402 G 1 HETATM 5 C C3 GOL . . . Q 3 14.969 -45.545 20.256 1 64.73 ? C3 GOL 402 G 1 HETATM 6 O O3 GOL . . . Q 3 15.57 -44.278 20.277 1 57.79 ? O3 GOL 402 G 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #