data_5M5Q # _model_server_result.job_id kK5qR_UZrkmsu4cu9KgprQ _model_server_result.datetime_utc '2024-11-04 22:16:52' _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 5m5q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5M5Q # _exptl.entry_id 5M5Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _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 90 _cell.entry_id 5M5Q _cell.length_a 102.365 _cell.length_b 102.365 _cell.length_c 69.048 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M5Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id D _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 NE2 HIS 138 A HIS 138 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc2 A NE2 HIS 140 A HIS 140 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc3 A OD2 ASP 151 A ASP 151 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc4 B ZN ZN . A ZN 301 1_555 C N4 7K1 . A 7K1 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? # _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 315 n n C1 H11 MPD sing 316 n n C1 H12 MPD sing 317 n n C1 H13 MPD sing 318 n n C2 O2 MPD sing 319 n n C2 CM MPD sing 320 n n C2 C3 MPD sing 321 n n O2 HO2 MPD sing 322 n n CM HM1 MPD sing 323 n n CM HM2 MPD sing 324 n n CM HM3 MPD sing 325 n n C3 C4 MPD sing 326 n n C3 H31 MPD sing 327 n n C3 H32 MPD sing 328 n n C4 O4 MPD sing 329 n n C4 C5 MPD sing 330 n n C4 H4 MPD sing 331 n n O4 HO4 MPD sing 332 n n C5 H51 MPD sing 333 n n C5 H52 MPD sing 334 n n C5 H53 MPD sing 335 n n # _atom_sites.entry_id 5M5Q _atom_sites.fract_transf_matrix[1][1] 0.009769 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009769 _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] 0.014483 _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 ZN A 1 301 999 ZN ZN . C 3 7K1 A 1 302 1 7K1 LI1 . D 4 MPD A 1 303 1 MPD MPD . E 5 HOH A 1 401 50 HOH HOH . E 5 HOH A 2 402 24 HOH HOH . E 5 HOH A 3 403 2 HOH HOH . E 5 HOH A 4 404 1 HOH HOH . E 5 HOH A 5 405 3 HOH HOH . E 5 HOH A 6 406 32 HOH HOH . E 5 HOH A 7 407 39 HOH HOH . E 5 HOH A 8 408 53 HOH HOH . E 5 HOH A 9 409 35 HOH HOH . E 5 HOH A 10 410 26 HOH HOH . E 5 HOH A 11 411 49 HOH HOH . E 5 HOH A 12 412 38 HOH HOH . E 5 HOH A 13 413 6 HOH HOH . E 5 HOH A 14 414 10 HOH HOH . E 5 HOH A 15 415 37 HOH HOH . E 5 HOH A 16 416 48 HOH HOH . E 5 HOH A 17 417 45 HOH HOH . E 5 HOH A 18 418 7 HOH HOH . E 5 HOH A 19 419 8 HOH HOH . E 5 HOH A 20 420 43 HOH HOH . E 5 HOH A 21 421 17 HOH HOH . E 5 HOH A 22 422 5 HOH HOH . E 5 HOH A 23 423 28 HOH HOH . E 5 HOH A 24 424 36 HOH HOH . E 5 HOH A 25 425 27 HOH HOH . E 5 HOH A 26 426 4 HOH HOH . E 5 HOH A 27 427 31 HOH HOH . E 5 HOH A 28 428 30 HOH HOH . E 5 HOH A 29 429 13 HOH HOH . E 5 HOH A 30 430 12 HOH HOH . E 5 HOH A 31 431 25 HOH HOH . E 5 HOH A 32 432 15 HOH HOH . E 5 HOH A 33 433 9 HOH HOH . E 5 HOH A 34 434 14 HOH HOH . E 5 HOH A 35 435 46 HOH HOH . E 5 HOH A 36 436 19 HOH HOH . E 5 HOH A 37 437 21 HOH HOH . E 5 HOH A 38 438 22 HOH HOH . E 5 HOH A 39 439 23 HOH HOH . E 5 HOH A 40 440 52 HOH HOH . E 5 HOH A 41 441 33 HOH HOH . E 5 HOH A 42 442 20 HOH HOH . E 5 HOH A 43 443 42 HOH HOH . E 5 HOH A 44 444 51 HOH HOH . E 5 HOH A 45 445 34 HOH HOH . E 5 HOH A 46 446 16 HOH HOH . E 5 HOH A 47 447 41 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 MPD . . . D 4 26.217 -28.62 4.585 1 90.78 ? C1 MPD 303 A 1 HETATM 2 C C2 MPD . . . D 4 27.11 -29.085 5.737 1 92.01 ? C2 MPD 303 A 1 HETATM 3 O O2 MPD . . . D 4 28.405 -28.471 5.598 1 93.52 ? O2 MPD 303 A 1 HETATM 4 C CM MPD . . . D 4 26.557 -28.598 7.061 1 89.32 ? CM MPD 303 A 1 HETATM 5 C C3 MPD . . . D 4 27.243 -30.648 5.778 1 94.25 ? C3 MPD 303 A 1 HETATM 6 C C4 MPD . . . D 4 27.818 -31.36 4.501 1 96.11 ? C4 MPD 303 A 1 HETATM 7 O O4 MPD . . . D 4 28.758 -30.554 3.775 1 96.23 ? O4 MPD 303 A 1 HETATM 8 C C5 MPD . . . D 4 28.434 -32.702 4.828 1 96.11 ? C5 MPD 303 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #