data_8RPH # _model_server_result.job_id xZAw-9lQZ4phLvvXGm_q6Q _model_server_result.datetime_utc '2024-11-14 20:06:02' _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 8rph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":703}' # _entry.id 8RPH # _exptl.entry_id 8RPH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.173 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'TRIETHYLENE GLYCOL' _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 97.06 _cell.angle_gamma 90 _cell.entry_id 8RPH _cell.length_a 173.326 _cell.length_b 118.189 _cell.length_c 201.166 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,J,K,L,Z 1 1 C,D,M,N,O,P,Q,R,S,AA 2 1 E,F,T,U,V,W,X,Y 3 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 5 _struct_asym.id R _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 OD1 ASP 460 A ASP 459 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? metalc ? metalc2 A OD1 ASN 487 A ASN 486 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc3 A O GLY 489 A GLY 488 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc4 H MG MG . A MG 702 1_555 I O2A A1H2A . A A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? metalc ? metalc5 H MG MG . A MG 702 1_555 I O3B A1H2A . A A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.947 ? metalc ? metalc6 B OD1 ASP 460 B ASP 459 1_555 K MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc7 B OD1 ASN 487 B ASN 486 1_555 K MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc8 B O GLY 489 B GLY 488 1_555 K MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc9 K MG MG . B MG 702 1_555 L O2A A1H2A . B A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc10 C OD1 ASP 460 C ASP 459 1_555 N MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc11 C OD1 ASN 487 C ASN 486 1_555 N MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc12 C O GLY 489 C GLY 488 1_555 N MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc13 N MG MG . C MG 702 1_555 O O1B A1H2A . C A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc14 N MG MG . C MG 702 1_555 O O2A A1H2A . C A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? metalc ? metalc15 N MG MG . C MG 702 1_555 AA O HOH . C HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc16 D OD1 ASP 460 D ASP 459 1_555 Q MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc17 D OD1 ASN 487 D ASN 486 1_555 Q MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc18 D O GLY 489 D GLY 488 1_555 Q MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc19 Q MG MG . D MG 702 1_555 S O3A A1H2A . D A1H2A 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc20 E OD1 ASP 460 E ASP 459 1_555 U MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc21 E OD1 ASN 487 E ASN 486 1_555 U MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc22 E O GLY 489 E GLY 488 1_555 U MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc23 U MG MG . E MG 702 1_555 V O2A A1H2A . E A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc24 U MG MG . E MG 702 1_555 V O2B A1H2A . E A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.988 ? metalc ? metalc25 U MG MG . E MG 702 1_555 V O3A A1H2A . E A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc26 F OD1 ASP 460 F ASP 459 1_555 X MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? metalc ? metalc27 F OD1 ASN 487 F ASN 486 1_555 X MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc28 F O GLY 489 F GLY 488 1_555 X MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc29 X MG MG . F MG 702 1_555 Y O1B A1H2A . F A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc30 X MG MG . F MG 702 1_555 Y O2A A1H2A . F A1H2A 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? # _chem_comp.formula 'C6 H14 O4' _chem_comp.formula_weight 150.173 _chem_comp.id PGE _chem_comp.mon_nstd_flag . _chem_comp.name 'TRIETHYLENE GLYCOL' _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 C1 O1 PGE sing 387 n n C1 C2 PGE sing 388 n n C1 H1 PGE sing 389 n n C1 H12 PGE sing 390 n n O1 HO1 PGE sing 391 n n C2 O2 PGE sing 392 n n C2 H2 PGE sing 393 n n C2 H22 PGE sing 394 n n O2 C3 PGE sing 395 n n C3 C4 PGE sing 396 n n C3 H3 PGE sing 397 n n C3 H32 PGE sing 398 n n C4 O3 PGE sing 399 n n C4 H4 PGE sing 400 n n C4 H42 PGE sing 401 n n O4 C6 PGE sing 402 n n O4 HO4 PGE sing 403 n n C6 C5 PGE sing 404 n n C6 H6 PGE sing 405 n n C6 H62 PGE sing 406 n n C5 O3 PGE sing 407 n n C5 H5 PGE sing 408 n n C5 H52 PGE sing 409 n n # _atom_sites.entry_id 8RPH _atom_sites.fract_transf_matrix[1][1] 0.005769 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000715 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008461 _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] 0.005009 _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 G 2 FAD A 1 701 701 FAD FAD . H 3 MG A 1 702 702 MG MG . I 4 A1H2A A 1 703 701 A1H2A HBT . J 2 FAD B 1 701 701 FAD FAD . K 3 MG B 1 702 702 MG MG . L 4 A1H2A B 1 703 701 A1H2A HBT . M 2 FAD C 1 701 701 FAD FAD . N 3 MG C 1 702 702 MG MG . O 4 A1H2A C 1 703 701 A1H2A HBT . P 2 FAD D 1 701 701 FAD FAD . Q 3 MG D 1 702 702 MG MG . R 5 PGE D 1 703 801 PGE PEG . S 4 A1H2A D 1 704 701 A1H2A HBT . T 2 FAD E 1 701 701 FAD FAD . U 3 MG E 1 702 702 MG MG . V 4 A1H2A E 1 703 701 A1H2A HBT . W 2 FAD F 1 701 701 FAD FAD . X 3 MG F 1 702 702 MG MG . Y 4 A1H2A F 1 703 701 A1H2A HBT . Z 6 HOH B 1 801 1 HOH HOH . AA 6 HOH C 1 801 2 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 PGE . . . R 5 8.004 13.92 103.01 1 80.71 ? C1 PGE 703 D 1 HETATM 2 O O1 PGE . . . R 5 8.835 14.54 103.977 1 80.15 ? O1 PGE 703 D 1 HETATM 3 C C2 PGE . . . R 5 8.316 12.471 102.815 1 80.25 ? C2 PGE 703 D 1 HETATM 4 O O2 PGE . . . R 5 7.312 11.88 102.004 1 81.05 ? O2 PGE 703 D 1 HETATM 5 C C3 PGE . . . R 5 7.454 10.477 101.85 1 79.06 ? C3 PGE 703 D 1 HETATM 6 C C4 PGE . . . R 5 6.281 9.918 101.101 1 78.99 ? C4 PGE 703 D 1 HETATM 7 O O4 PGE . . . R 5 4.256 10.247 96.746 1 83.39 ? O4 PGE 703 D 1 HETATM 8 C C6 PGE . . . R 5 5.12 10.796 97.728 1 79.47 ? C6 PGE 703 D 1 HETATM 9 C C5 PGE . . . R 5 5.151 10.016 99.001 1 80.24 ? C5 PGE 703 D 1 HETATM 10 O O3 PGE . . . R 5 6.142 10.575 99.851 1 78.78 ? O3 PGE 703 D 1 HETATM 11 H H1 PGE . . . R 5 8.111 14.386 102.154 1 97.02 ? H1 PGE 703 D 1 HETATM 12 H H12 PGE . . . R 5 7.069 14.009 103.291 1 97.02 ? H12 PGE 703 D 1 HETATM 13 H HO1 PGE . . . R 5 9.642 14.469 103.734 1 96.36 ? HO1 PGE 703 D 1 HETATM 14 H H2 PGE . . . R 5 9.193 12.372 102.382 1 96.48 ? H2 PGE 703 D 1 HETATM 15 H H22 PGE . . . R 5 8.35 12.015 103.685 1 96.48 ? H22 PGE 703 D 1 HETATM 16 H H3 PGE . . . R 5 8.283 10.281 101.359 1 95.05 ? H3 PGE 703 D 1 HETATM 17 H H32 PGE . . . R 5 7.513 10.053 102.735 1 95.05 ? H32 PGE 703 D 1 HETATM 18 H H4 PGE . . . R 5 5.462 10.042 101.631 1 94.96 ? H4 PGE 703 D 1 HETATM 19 H H42 PGE . . . R 5 6.411 8.955 100.955 1 94.96 ? H42 PGE 703 D 1 HETATM 20 H HO4 PGE . . . R 5 4.292 10.725 96.049 1 100.24 ? HO4 PGE 703 D 1 HETATM 21 H H6 PGE . . . R 5 6.028 10.836 97.361 1 95.53 ? H6 PGE 703 D 1 HETATM 22 H H62 PGE . . . R 5 4.83 11.711 97.926 1 95.53 ? H62 PGE 703 D 1 HETATM 23 H H5 PGE . . . R 5 4.273 10.053 99.441 1 96.46 ? H5 PGE 703 D 1 HETATM 24 H H52 PGE . . . R 5 5.363 9.074 98.815 1 96.46 ? H52 PGE 703 D 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 159 _model_server_stats.query_time_ms 574 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 24 #