data_1Q8D # _model_server_result.job_id Ha9MHOVfqMhmmZIUvAqD5Q _model_server_result.datetime_utc '2025-08-31 10:35:52' _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 1q8d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 1Q8D # _exptl.entry_id 1Q8D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 120 _cell.entry_id 1Q8D _cell.length_a 61.334 _cell.length_b 61.334 _cell.length_c 65.154 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Q8D _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _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 A SG CYS 5 A CYS 243 1_555 A SG CYS 75 A CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 A SG CYS 12 A CYS 250 1_555 A SG CYS 18 A CYS 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 29 A CYS 267 1_555 A SG CYS 47 A CYS 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 A SG CYS 39 A CYS 277 1_555 A SG CYS 99 A CYS 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 77 A CYS 315 1_555 A SG CYS 87 A CYS 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A C VAL 58 A VAL 296 1_555 A N MSE 59 A MSE 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C MSE 59 A MSE 297 1_555 A N THR 60 A THR 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C2 MPD sing 216 n n C1 H11 MPD sing 217 n n C1 H12 MPD sing 218 n n C1 H13 MPD sing 219 n n C2 O2 MPD sing 220 n n C2 CM MPD sing 221 n n C2 C3 MPD sing 222 n n O2 HO2 MPD sing 223 n n CM HM1 MPD sing 224 n n CM HM2 MPD sing 225 n n CM HM3 MPD sing 226 n n C3 C4 MPD sing 227 n n C3 H31 MPD sing 228 n n C3 H32 MPD sing 229 n n C4 O4 MPD sing 230 n n C4 C5 MPD sing 231 n n C4 H4 MPD sing 232 n n O4 HO4 MPD sing 233 n n C5 H51 MPD sing 234 n n C5 H52 MPD sing 235 n n C5 H53 MPD sing 236 n n # _atom_sites.entry_id 1Q8D _atom_sites.fract_transf_matrix[1][1] 0.016304 _atom_sites.fract_transf_matrix[1][2] 0.009413 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018826 _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] 0.015348 _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 B 2 MPD A 1 400 400 MPD MPD . C 3 HOH A 1 401 401 HOH WAT . C 3 HOH A 2 402 402 HOH WAT . C 3 HOH A 3 403 403 HOH WAT . C 3 HOH A 4 404 404 HOH WAT . C 3 HOH A 5 405 405 HOH WAT . C 3 HOH A 6 406 406 HOH WAT . C 3 HOH A 7 407 407 HOH WAT . C 3 HOH A 8 408 408 HOH WAT . C 3 HOH A 9 409 409 HOH WAT . C 3 HOH A 10 410 410 HOH WAT . C 3 HOH A 11 411 411 HOH WAT . C 3 HOH A 12 412 412 HOH WAT . C 3 HOH A 13 413 413 HOH WAT . C 3 HOH A 14 414 414 HOH WAT . C 3 HOH A 15 415 415 HOH WAT . C 3 HOH A 16 416 416 HOH WAT . C 3 HOH A 17 417 417 HOH WAT . C 3 HOH A 18 418 418 HOH WAT . C 3 HOH A 19 419 419 HOH WAT . C 3 HOH A 20 420 420 HOH WAT . C 3 HOH A 21 421 421 HOH WAT . C 3 HOH A 22 422 422 HOH WAT . C 3 HOH A 23 423 423 HOH WAT . C 3 HOH A 24 424 424 HOH WAT . C 3 HOH A 25 425 425 HOH WAT . C 3 HOH A 26 426 426 HOH WAT . C 3 HOH A 27 427 427 HOH WAT . C 3 HOH A 28 428 428 HOH WAT . C 3 HOH A 29 429 429 HOH WAT . C 3 HOH A 30 430 430 HOH WAT . C 3 HOH A 31 431 431 HOH WAT . C 3 HOH A 32 432 432 HOH WAT . C 3 HOH A 33 433 433 HOH WAT . C 3 HOH A 34 434 434 HOH WAT . C 3 HOH A 35 435 435 HOH WAT . C 3 HOH A 36 436 436 HOH WAT . C 3 HOH A 37 437 437 HOH WAT . C 3 HOH A 38 438 438 HOH WAT . C 3 HOH A 39 439 439 HOH WAT . C 3 HOH A 40 440 440 HOH WAT . C 3 HOH A 41 441 441 HOH WAT . C 3 HOH A 42 442 442 HOH WAT . C 3 HOH A 43 443 443 HOH WAT . C 3 HOH A 44 444 444 HOH WAT . C 3 HOH A 45 445 445 HOH WAT . C 3 HOH A 46 446 446 HOH WAT . C 3 HOH A 47 447 447 HOH WAT . C 3 HOH A 48 448 448 HOH WAT . C 3 HOH A 49 449 449 HOH WAT . C 3 HOH A 50 450 450 HOH WAT . C 3 HOH A 51 451 451 HOH WAT . C 3 HOH A 52 452 452 HOH WAT . C 3 HOH A 53 453 453 HOH WAT . C 3 HOH A 54 454 454 HOH WAT . C 3 HOH A 55 455 455 HOH WAT . C 3 HOH A 56 456 456 HOH WAT . C 3 HOH A 57 457 457 HOH WAT . C 3 HOH A 58 458 458 HOH WAT . C 3 HOH A 59 459 459 HOH WAT . C 3 HOH A 60 460 460 HOH WAT . C 3 HOH A 61 461 461 HOH WAT . C 3 HOH A 62 462 462 HOH WAT . C 3 HOH A 63 463 463 HOH WAT . C 3 HOH A 64 464 464 HOH WAT . C 3 HOH A 65 465 465 HOH WAT . C 3 HOH A 66 466 466 HOH WAT . C 3 HOH A 67 467 467 HOH WAT . C 3 HOH A 68 468 468 HOH WAT . C 3 HOH A 69 469 469 HOH WAT . C 3 HOH A 70 470 470 HOH WAT . C 3 HOH A 71 471 471 HOH WAT . C 3 HOH A 72 472 472 HOH WAT . C 3 HOH A 73 473 473 HOH WAT . C 3 HOH A 74 474 474 HOH WAT . C 3 HOH A 75 475 475 HOH WAT . C 3 HOH A 76 476 476 HOH WAT . C 3 HOH A 77 477 477 HOH WAT . C 3 HOH A 78 478 478 HOH WAT . C 3 HOH A 79 479 479 HOH WAT . C 3 HOH A 80 480 480 HOH WAT . C 3 HOH A 81 481 481 HOH WAT . C 3 HOH A 82 482 482 HOH WAT . C 3 HOH A 83 483 483 HOH WAT . C 3 HOH A 84 485 485 HOH WAT . C 3 HOH A 85 486 486 HOH WAT . C 3 HOH A 86 487 487 HOH WAT . C 3 HOH A 87 488 488 HOH WAT . C 3 HOH A 88 490 490 HOH WAT . C 3 HOH A 89 491 491 HOH WAT . C 3 HOH A 90 492 492 HOH WAT . C 3 HOH A 91 493 493 HOH WAT . C 3 HOH A 92 494 494 HOH WAT . C 3 HOH A 93 495 495 HOH WAT . C 3 HOH A 94 497 497 HOH WAT . C 3 HOH A 95 500 500 HOH WAT . C 3 HOH A 96 505 505 HOH WAT . C 3 HOH A 97 507 507 HOH WAT . # 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 MPD . . . B 2 24.27 19.43 13.014 1 34.52 ? C1 MPD 400 A 1 HETATM 2 C C2 MPD . . . B 2 24.522 18.021 12.526 1 33.99 ? C2 MPD 400 A 1 HETATM 3 O O2 MPD . . . B 2 24.536 17.199 13.707 1 36.56 ? O2 MPD 400 A 1 HETATM 4 C CM MPD . . . B 2 23.438 17.557 11.605 1 34.64 ? CM MPD 400 A 1 HETATM 5 C C3 MPD . . . B 2 25.923 17.855 11.873 1 32.4 ? C3 MPD 400 A 1 HETATM 6 C C4 MPD . . . B 2 26.057 18.032 10.357 1 32.81 ? C4 MPD 400 A 1 HETATM 7 O O4 MPD . . . B 2 25.64 19.312 9.945 1 32.84 ? O4 MPD 400 A 1 HETATM 8 C C5 MPD . . . B 2 27.498 17.842 9.916 1 31.28 ? C5 MPD 400 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 411 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 8 #