data_5OUG # _model_server_result.job_id 76EppO7XZ40N7obWF3C7IA _model_server_result.datetime_utc '2024-12-02 12:46:30' _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 5oug # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":303}' # _entry.id 5OUG # _exptl.entry_id 5OUG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIMETHYL SULFOXIDE' _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 107.29 _cell.angle_gamma 90 _cell.entry_id 5OUG _cell.length_a 68.673 _cell.length_b 119.806 _cell.length_c 84.543 _cell.Z_PDB 10 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OUG _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 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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA _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 Z _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 5 ? 3 5 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 7 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n F NAG 1 F 1 NAG A 1102 NAG 2 n F NAG 2 F 2 NAG A 1103 NAG 3 n G NAG 1 G 1 NAG B 302 NAG 3 n G NAG 2 G 2 NAG B 303 NAG 3 n G BMA 3 G 3 BMA B 304 BMA 3 n G MAN 4 G 4 MAN B 306 MAN 3 n G MAN 5 G 5 MAN B 305 MAN 4 n H NAG 1 H 1 NAG C 301 NAG 4 n H NAG 2 H 2 NAG C 1218 NAG 4 n H BMA 3 H 3 BMA C 1219 BMA 4 n I NAG 1 I 1 NAG D 301 NAG 4 n I NAG 2 I 2 NAG D 1220 NAG 4 n I BMA 3 I 3 BMA D 1221 BMA 2 n J NAG 1 J 1 NAG E 304 NAG 2 n J NAG 2 J 2 NAG E 1222 NAG # 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 A SG CYS 126 A CYS 125 1_555 A SG CYS 139 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf2 A SG CYS 187 A CYS 186 1_555 A SG CYS 188 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf3 B SG CYS 126 B CYS 125 1_555 B SG CYS 139 B CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 B SG CYS 187 B CYS 186 1_555 B SG CYS 188 B CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf5 C SG CYS 126 C CYS 125 1_555 C SG CYS 139 C CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 C SG CYS 187 C CYS 186 1_555 C SG CYS 188 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf7 D SG CYS 126 D CYS 125 1_555 D SG CYS 139 D CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf8 D SG CYS 187 D CYS 186 1_555 D SG CYS 188 D CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? disulf ? disulf9 E SG CYS 126 E CYS 125 1_555 E SG CYS 139 E CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf10 E SG CYS 187 E CYS 186 1_555 E SG CYS 188 E CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? covale ? covale1 A ND2 ASN 109 A ASN 108 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 B ND2 ASN 109 B ASN 108 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 C ND2 ASN 109 C ASN 108 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 D ND2 ASN 109 D ASN 108 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale5 E ND2 ASN 109 E ASN 108 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 G O4 NAG . G NAG 2 1_555 G C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale9 G O3 BMA . G BMA 3 1_555 G C1 MAN . G MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 G O6 BMA . G BMA 3 1_555 G C1 MAN . G MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale11 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 H O4 NAG . H NAG 2 1_555 H C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale13 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale14 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale15 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id DMS _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYL SULFOXIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 S O DMS doub 131 n n S C1 DMS sing 132 n n S C2 DMS sing 133 n n C1 H11 DMS sing 134 n n C1 H12 DMS sing 135 n n C1 H13 DMS sing 136 n n C2 H21 DMS sing 137 n n C2 H22 DMS sing 138 n n C2 H23 DMS sing 139 n n # _atom_sites.entry_id 5OUG _atom_sites.fract_transf_matrix[1][1] 0.014562 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004533 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008347 _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] 0.012388 _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 K 5 L0B A 1 1101 1101 L0B L0B . L 6 9Z0 A 1 1104 1104 9Z0 9Z0 . M 6 9Z0 A 1 1105 1105 9Z0 9Z0 . N 5 L0B A 1 1106 301 L0B L0B . O 6 9Z0 B 1 306 307 9Z0 9Z0 . P 6 9Z0 B 1 307 308 9Z0 9Z0 . Q 5 L0B B 1 308 309 L0B L0B . R 6 9Z0 C 1 304 304 9Z0 9Z0 . S 6 9Z0 C 1 305 305 9Z0 9Z0 . T 5 L0B C 1 306 306 L0B L0B . U 6 9Z0 D 1 304 304 9Z0 9Z0 . V 6 9Z0 D 1 305 305 9Z0 9Z0 . W 5 L0B D 1 306 306 L0B L0B . X 6 9Z0 E 1 301 301 9Z0 9Z0 . Y 6 9Z0 E 1 302 302 9Z0 9Z0 . Z 7 DMS E 1 303 303 DMS DMS . AA 8 HOH A 1 1201 1201 HOH HOH . AA 8 HOH A 2 1202 1202 HOH HOH . AA 8 HOH A 3 1203 1203 HOH HOH . AA 8 HOH A 4 1204 1205 HOH HOH . AA 8 HOH A 5 1205 1204 HOH HOH . AA 8 HOH A 6 1206 1207 HOH HOH . AA 8 HOH A 7 1207 1206 HOH HOH . AA 8 HOH A 8 1208 1208 HOH HOH . AA 8 HOH A 9 1209 1211 HOH HOH . AA 8 HOH A 10 1210 1210 HOH HOH . AA 8 HOH A 11 1211 1209 HOH HOH . AA 8 HOH A 12 1212 1212 HOH HOH . AA 8 HOH A 13 1213 1213 HOH HOH . AA 8 HOH A 14 1214 1215 HOH HOH . AA 8 HOH A 15 1215 1214 HOH HOH . AA 8 HOH A 16 1216 1216 HOH HOH . AA 8 HOH A 17 1217 1217 HOH HOH . BA 8 HOH B 1 401 1103 HOH HOH . BA 8 HOH B 2 402 1101 HOH HOH . BA 8 HOH B 3 403 1102 HOH HOH . BA 8 HOH B 4 404 1105 HOH HOH . BA 8 HOH B 5 405 1106 HOH HOH . BA 8 HOH B 6 406 1104 HOH HOH . BA 8 HOH B 7 407 1108 HOH HOH . BA 8 HOH B 8 408 1110 HOH HOH . BA 8 HOH B 9 409 1107 HOH HOH . BA 8 HOH B 10 410 1109 HOH HOH . BA 8 HOH B 11 411 1113 HOH HOH . BA 8 HOH B 12 412 1112 HOH HOH . BA 8 HOH B 13 413 1114 HOH HOH . BA 8 HOH B 14 414 1115 HOH HOH . BA 8 HOH B 15 415 1111 HOH HOH . BA 8 HOH B 16 416 1117 HOH HOH . BA 8 HOH B 17 417 1116 HOH HOH . BA 8 HOH B 18 418 1118 HOH HOH . BA 8 HOH B 19 419 1120 HOH HOH . BA 8 HOH B 20 420 1119 HOH HOH . BA 8 HOH B 21 421 1122 HOH HOH . BA 8 HOH B 22 422 1123 HOH HOH . BA 8 HOH B 23 423 1121 HOH HOH . BA 8 HOH B 24 424 1124 HOH HOH . BA 8 HOH B 25 425 1125 HOH HOH . BA 8 HOH B 26 426 1126 HOH HOH . CA 8 HOH C 1 1101 1101 HOH HOH . CA 8 HOH C 2 1102 1102 HOH HOH . CA 8 HOH C 3 1103 1103 HOH HOH . CA 8 HOH C 4 1104 1104 HOH HOH . CA 8 HOH C 5 1105 1106 HOH HOH . CA 8 HOH C 6 1106 1107 HOH HOH . CA 8 HOH C 7 1107 1110 HOH HOH . CA 8 HOH C 8 1108 1105 HOH HOH . CA 8 HOH C 9 1109 1108 HOH HOH . CA 8 HOH C 10 1110 1112 HOH HOH . CA 8 HOH C 11 1111 1111 HOH HOH . CA 8 HOH C 12 1112 1115 HOH HOH . CA 8 HOH C 13 1113 1113 HOH HOH . CA 8 HOH C 14 1114 1114 HOH HOH . CA 8 HOH C 15 1115 1116 HOH HOH . CA 8 HOH C 16 1116 1117 HOH HOH . CA 8 HOH C 17 1117 1119 HOH HOH . CA 8 HOH C 18 1118 1118 HOH HOH . CA 8 HOH C 19 1119 1120 HOH HOH . DA 8 HOH D 1 1101 1101 HOH HOH . DA 8 HOH D 2 1102 1103 HOH HOH . DA 8 HOH D 3 1103 1102 HOH HOH . DA 8 HOH D 4 1104 1104 HOH HOH . DA 8 HOH D 5 1105 1105 HOH HOH . DA 8 HOH D 6 1106 1109 HOH HOH . DA 8 HOH D 7 1107 1107 HOH HOH . DA 8 HOH D 8 1108 1106 HOH HOH . DA 8 HOH D 9 1109 1108 HOH HOH . DA 8 HOH D 10 1110 1111 HOH HOH . DA 8 HOH D 11 1111 1109 HOH HOH . DA 8 HOH D 12 1112 1110 HOH HOH . DA 8 HOH D 13 1113 1112 HOH HOH . DA 8 HOH D 14 1114 1115 HOH HOH . DA 8 HOH D 15 1115 1113 HOH HOH . DA 8 HOH D 16 1116 1114 HOH HOH . DA 8 HOH D 17 1117 1116 HOH HOH . DA 8 HOH D 18 1118 1117 HOH HOH . EA 8 HOH E 1 401 401 HOH HOH . EA 8 HOH E 2 402 402 HOH HOH . EA 8 HOH E 3 403 403 HOH HOH . EA 8 HOH E 4 404 404 HOH HOH . EA 8 HOH E 5 405 405 HOH HOH . EA 8 HOH E 6 406 406 HOH HOH . EA 8 HOH E 7 407 407 HOH HOH . EA 8 HOH E 8 408 408 HOH HOH . EA 8 HOH E 9 409 409 HOH HOH . EA 8 HOH E 10 410 410 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 S S DMS . . . Z 7 2.219 18.744 8.713 1 113.48 ? S DMS 303 E 1 HETATM 2 O O DMS . . . Z 7 2.198 19.756 7.626 1 123.76 ? O DMS 303 E 1 HETATM 3 C C1 DMS . . . Z 7 2.996 19.476 10.042 1 112.27 ? C1 DMS 303 E 1 HETATM 4 C C2 DMS . . . Z 7 0.647 18.439 9.306 1 110.46 ? C2 DMS 303 E 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 43 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #