data_6KDY # _model_server_result.job_id rc60SC7N0a1k2stRar9mRw _model_server_result.datetime_utc '2025-07-18 13:24:35' _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 6kdy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":401}' # _entry.id 6KDY # _exptl.entry_id 6KDY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.449 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1-DEOXY-1-THIO-HEPTAETHYLENE 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 100.31 _cell.angle_gamma 90 _cell.entry_id 6KDY _cell.length_a 99.46 _cell.length_b 162.979 _cell.length_c 114.407 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KDY _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 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 PISA dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J 1 1 C,D,K,L,M 2 1 E,F,N,O 3 1 G,H,P,Q 4 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 6 _struct_asym.id O _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H30 O7 S' _chem_comp.formula_weight 342.449 _chem_comp.id PE7 _chem_comp.mon_nstd_flag . _chem_comp.name '1-DEOXY-1-THIO-HEPTAETHYLENE 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 S1 C2 PE7 sing 419 n n S1 HS PE7 sing 420 n n C2 C3 PE7 sing 421 n n C2 H21 PE7 sing 422 n n C2 H22 PE7 sing 423 n n C3 O4 PE7 sing 424 n n C3 H31 PE7 sing 425 n n C3 H32 PE7 sing 426 n n O4 C5 PE7 sing 427 n n C5 C6 PE7 sing 428 n n C5 H51 PE7 sing 429 n n C5 H52 PE7 sing 430 n n C6 O7 PE7 sing 431 n n C6 H61 PE7 sing 432 n n C6 H62 PE7 sing 433 n n O7 C8 PE7 sing 434 n n C8 C9 PE7 sing 435 n n C8 H81 PE7 sing 436 n n C8 H82 PE7 sing 437 n n C9 O10 PE7 sing 438 n n C9 H91 PE7 sing 439 n n C9 H92 PE7 sing 440 n n O10 C11 PE7 sing 441 n n C11 C12 PE7 sing 442 n n C11 H111 PE7 sing 443 n n C11 H112 PE7 sing 444 n n C12 O13 PE7 sing 445 n n C12 H121 PE7 sing 446 n n C12 H122 PE7 sing 447 n n O13 C14 PE7 sing 448 n n C14 C15 PE7 sing 449 n n C14 H141 PE7 sing 450 n n C14 H142 PE7 sing 451 n n C15 O16 PE7 sing 452 n n C15 H151 PE7 sing 453 n n C15 H152 PE7 sing 454 n n O16 C17 PE7 sing 455 n n C17 C18 PE7 sing 456 n n C17 H171 PE7 sing 457 n n C17 H172 PE7 sing 458 n n C18 O19 PE7 sing 459 n n C18 H181 PE7 sing 460 n n C18 H182 PE7 sing 461 n n O19 C20 PE7 sing 462 n n C20 C21 PE7 sing 463 n n C20 H201 PE7 sing 464 n n C20 H202 PE7 sing 465 n n C21 O22 PE7 sing 466 n n C21 H211 PE7 sing 467 n n C21 H212 PE7 sing 468 n n O22 HO2 PE7 sing 469 n n # _atom_sites.entry_id 6KDY _atom_sites.fract_transf_matrix[1][1] 0.010054 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001828 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006136 _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] 0.008884 _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 3 NAD A 1 401 3 NAD NAD . J 4 PG4 B 1 401 2 PG4 PG4 . K 3 NAD C 1 401 2 NAD NAD . L 5 2PE D 1 401 1 2PE 2PE . M 4 PG4 D 1 402 1 PG4 PG4 . N 3 NAD E 1 401 1 NAD NAD . O 6 PE7 F 1 401 1 PE7 PE7 . P 3 NAD G 1 401 4 NAD NAD . Q 7 P6G H 1 401 1 P6G P6G . # 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 S1 PE7 . . . O 6 48.502 -31.016 7.229 1 104.29 ? S1 PE7 401 F 1 HETATM 2 C C2 PE7 . . . O 6 50.188 -30.453 6.836 1 91.34 ? C2 PE7 401 F 1 HETATM 3 C C3 PE7 . . . O 6 50.717 -29.63 8.017 1 94.89 ? C3 PE7 401 F 1 HETATM 4 O O4 PE7 . . . O 6 50.932 -30.446 9.137 1 88.8 ? O4 PE7 401 F 1 HETATM 5 C C5 PE7 . . . O 6 52.279 -30.668 9.456 1 82.17 ? C5 PE7 401 F 1 HETATM 6 C C6 PE7 . . . O 6 52.452 -32.16 9.718 1 77.18 ? C6 PE7 401 F 1 HETATM 7 O O7 PE7 . . . O 6 51.992 -32.866 8.592 1 80.89 ? O7 PE7 401 F 1 HETATM 8 C C8 PE7 . . . O 6 50.709 -33.434 8.665 1 78.65 ? C8 PE7 401 F 1 HETATM 9 C C9 PE7 . . . O 6 50.264 -33.582 10.121 1 83.68 ? C9 PE7 401 F 1 HETATM 10 O O10 PE7 . . . O 6 49.31 -32.596 10.414 1 88.05 ? O10 PE7 401 F 1 HETATM 11 C C11 PE7 . . . O 6 49.573 -31.788 11.526 1 76.69 ? C11 PE7 401 F 1 HETATM 12 C C12 PE7 . . . O 6 48.399 -31.76 12.502 1 67.32 ? C12 PE7 401 F 1 HETATM 13 O O13 PE7 . . . O 6 48.655 -30.801 13.494 1 74.2 ? O13 PE7 401 F 1 HETATM 14 C C14 PE7 . . . O 6 49.991 -30.685 13.901 1 70.59 ? C14 PE7 401 F 1 HETATM 15 C C15 PE7 . . . O 6 50.307 -31.742 14.967 1 76.86 ? C15 PE7 401 F 1 HETATM 16 O O16 PE7 . . . O 6 50.355 -33.048 14.445 1 69.92 ? O16 PE7 401 F 1 HETATM 17 C C17 PE7 . . . O 6 51.623 -33.439 13.996 1 72.12 ? C17 PE7 401 F 1 HETATM 18 C C18 PE7 . . . O 6 51.922 -34.863 14.452 1 70.27 ? C18 PE7 401 F 1 HETATM 19 O O19 PE7 . . . O 6 51.459 -35.009 15.765 1 74.91 ? O19 PE7 401 F 1 HETATM 20 C C20 PE7 . . . O 6 52.093 -36.027 16.484 1 63.05 ? C20 PE7 401 F 1 HETATM 21 C C21 PE7 . . . O 6 51.299 -36.277 17.754 1 62.58 ? C21 PE7 401 F 1 HETATM 22 O O22 PE7 . . . O 6 50.92 -35.047 18.285 1 65.19 ? O22 PE7 401 F 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 22 #