data_7UB4 # _model_server_result.job_id rB_eiGimsZWt7_fDU-dbYQ _model_server_result.datetime_utc '2024-12-15 08:53:48' _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 7ub4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7UB4 # _exptl.entry_id 7UB4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 7UB4 _cell.length_a 124.814 _cell.length_b 124.814 _cell.length_c 83.09 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UB4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 N1 C2 PLP doub 260 n y N1 C6 PLP sing 261 n y C2 C2A PLP sing 262 n n C2 C3 PLP sing 263 n y C2A H2A1 PLP sing 264 n n C2A H2A2 PLP sing 265 n n C2A H2A3 PLP sing 266 n n C3 O3 PLP sing 267 n n C3 C4 PLP doub 268 n y O3 HO3 PLP sing 269 n n C4 C4A PLP sing 270 n n C4 C5 PLP sing 271 n y C4A O4A PLP doub 272 n n C4A H4A PLP sing 273 n n C5 C6 PLP doub 274 n y C5 C5A PLP sing 275 n n C6 H6 PLP sing 276 n n C5A O4P PLP sing 277 n n C5A H5A1 PLP sing 278 n n C5A H5A2 PLP sing 279 n n O4P P PLP sing 280 n n P O1P PLP doub 281 n n P O2P PLP sing 282 n n P O3P PLP sing 283 n n O2P HOP2 PLP sing 284 n n O3P HOP3 PLP sing 285 n n # _atom_sites.entry_id 7UB4 _atom_sites.fract_transf_matrix[1][1] 0.008012 _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] 0.008012 _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] 0.012035 _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 PLP A 1 301 306 PLP PLP . C 2 PLP A 1 302 308 PLP PLP . D 3 HOH A 1 401 29 HOH HOH . D 3 HOH A 2 402 21 HOH HOH . D 3 HOH A 3 403 8 HOH HOH . D 3 HOH A 4 404 16 HOH HOH . D 3 HOH A 5 405 5 HOH HOH . D 3 HOH A 6 406 10 HOH HOH . D 3 HOH A 7 407 32 HOH HOH . D 3 HOH A 8 408 12 HOH HOH . D 3 HOH A 9 409 36 HOH HOH . D 3 HOH A 10 410 7 HOH HOH . D 3 HOH A 11 411 31 HOH HOH . D 3 HOH A 12 412 46 HOH HOH . D 3 HOH A 13 413 3 HOH HOH . D 3 HOH A 14 414 19 HOH HOH . D 3 HOH A 15 415 26 HOH HOH . D 3 HOH A 16 416 20 HOH HOH . D 3 HOH A 17 417 4 HOH HOH . D 3 HOH A 18 418 41 HOH HOH . D 3 HOH A 19 419 25 HOH HOH . D 3 HOH A 20 420 28 HOH HOH . D 3 HOH A 21 421 1 HOH HOH . D 3 HOH A 22 422 27 HOH HOH . D 3 HOH A 23 423 35 HOH HOH . D 3 HOH A 24 424 44 HOH HOH . D 3 HOH A 25 425 17 HOH HOH . D 3 HOH A 26 426 38 HOH HOH . D 3 HOH A 27 427 40 HOH HOH . D 3 HOH A 28 428 6 HOH HOH . D 3 HOH A 29 429 30 HOH HOH . D 3 HOH A 30 430 51 HOH HOH . D 3 HOH A 31 431 22 HOH HOH . D 3 HOH A 32 432 9 HOH HOH . D 3 HOH A 33 433 15 HOH HOH . D 3 HOH A 34 434 13 HOH HOH . D 3 HOH A 35 435 2 HOH HOH . D 3 HOH A 36 436 52 HOH HOH . D 3 HOH A 37 437 24 HOH HOH . D 3 HOH A 38 438 18 HOH HOH . D 3 HOH A 39 439 50 HOH HOH . D 3 HOH A 40 440 47 HOH HOH . D 3 HOH A 41 441 34 HOH HOH . D 3 HOH A 42 442 43 HOH HOH . D 3 HOH A 43 443 11 HOH HOH . D 3 HOH A 44 444 49 HOH HOH . D 3 HOH A 45 445 42 HOH HOH . D 3 HOH A 46 446 37 HOH HOH . D 3 HOH A 47 447 45 HOH HOH . D 3 HOH A 48 448 39 HOH HOH . D 3 HOH A 49 449 14 HOH HOH . D 3 HOH A 50 450 23 HOH HOH . D 3 HOH A 51 451 33 HOH HOH . D 3 HOH A 52 452 48 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 N N1 PLP . . . B 2 88.775 -0.198 8.338 1 64.21 ? N1 PLP 301 A 1 HETATM 2 C C2 PLP . . . B 2 88.076 -0.354 7.154 1 73.16 ? C2 PLP 301 A 1 HETATM 3 C C2A PLP . . . B 2 87.356 0.848 6.587 1 51.95 ? C2A PLP 301 A 1 HETATM 4 C C3 PLP . . . B 2 88.054 -1.616 6.52 1 89.91 ? C3 PLP 301 A 1 HETATM 5 O O3 PLP . . . B 2 87.351 -1.778 5.342 1 83.78 ? O3 PLP 301 A 1 HETATM 6 C C4 PLP . . . B 2 88.736 -2.722 7.078 1 84.89 ? C4 PLP 301 A 1 HETATM 7 C C4A PLP . . . B 2 88.34 -4.109 6.602 1 83.52 ? C4A PLP 301 A 1 HETATM 8 O O4A PLP . . . B 2 88.198 -5.09 7.343 1 77 ? O4A PLP 301 A 1 HETATM 9 C C5 PLP . . . B 2 89.443 -2.531 8.281 1 77.64 ? C5 PLP 301 A 1 HETATM 10 C C6 PLP . . . B 2 89.447 -1.27 8.89 1 65.9 ? C6 PLP 301 A 1 HETATM 11 C C5A PLP . . . B 2 90.231 -3.626 8.984 1 63.44 ? C5A PLP 301 A 1 HETATM 12 O O4P PLP . . . B 2 90.259 -3.278 10.355 1 43.75 ? O4P PLP 301 A 1 HETATM 13 P P PLP . . . B 2 91.598 -2.776 11.07 1 32.4 ? P PLP 301 A 1 HETATM 14 O O1P PLP . . . B 2 92.788 -3 10.176 1 38.03 ? O1P PLP 301 A 1 HETATM 15 O O2P PLP . . . B 2 91.775 -3.475 12.397 1 39.69 ? O2P PLP 301 A 1 HETATM 16 O O3P PLP . . . B 2 91.476 -1.294 11.306 1 46.93 ? O3P PLP 301 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 16 #