data_7E6F # _model_server_result.job_id C2_qY-nTlh-6XYSKHADuuw _model_server_result.datetime_utc '2024-10-11 03:20:56' _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 7e6f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 7E6F # _exptl.entry_id 7E6F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 248.173 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE" _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 7E6F _cell.length_a 92.8 _cell.length_b 92.8 _cell.length_c 129.5 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7E6F _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_554 -x,-x+y,-z-2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -86.333333 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C8 H13 N2 O5 P' _chem_comp.formula_weight 248.173 _chem_comp.id PMP _chem_comp.mon_nstd_flag . _chem_comp.name "4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "PYRIDOXAMINE-5'-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 PMP doub 285 n y N1 C6 PMP sing 286 n y C2 C2A PMP sing 287 n n C2 C3 PMP sing 288 n y C2A H2A1 PMP sing 289 n n C2A H2A2 PMP sing 290 n n C2A H2A3 PMP sing 291 n n C3 O3 PMP sing 292 n n C3 C4 PMP doub 293 n y O3 HO3 PMP sing 294 n n C4 C4A PMP sing 295 n n C4 C5 PMP sing 296 n y C4A N4A PMP sing 297 n n C4A H4A1 PMP sing 298 n n C4A H4A2 PMP sing 299 n n N4A HNA1 PMP sing 300 n n N4A HNA2 PMP sing 301 n n C5 C6 PMP doub 302 n y C5 C5A PMP sing 303 n n C6 H6 PMP sing 304 n n C5A O4P PMP sing 305 n n C5A H5A1 PMP sing 306 n n C5A H5A2 PMP sing 307 n n O4P P PMP sing 308 n n P O1P PMP doub 309 n n P O2P PMP sing 310 n n P O3P PMP sing 311 n n O2P HOP2 PMP sing 312 n n O3P HOP3 PMP sing 313 n n # _atom_sites.entry_id 7E6F _atom_sites.fract_transf_matrix[1][1] 0.010776 _atom_sites.fract_transf_matrix[1][2] 0.006221 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012443 _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] 0.007722 _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 PEG A 1 501 1 PEG PEG . C 3 PMP A 1 502 1 PMP PMP . D 4 EDO A 1 503 601 EDO EDO . E 5 HOH A 1 601 5 HOH HOH . E 5 HOH A 2 602 6 HOH HOH . E 5 HOH A 3 603 7 HOH HOH . E 5 HOH A 4 604 2 HOH HOH . E 5 HOH A 5 605 3 HOH HOH . E 5 HOH A 6 606 1 HOH HOH . E 5 HOH A 7 607 4 HOH HOH . E 5 HOH A 8 608 8 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 PMP . . . C 3 -33.629 31.232 -34.169 1 76.07 ? N1 PMP 502 A 1 HETATM 2 C C2 PMP . . . C 3 -34.886 31.678 -34.084 1 75.99 ? C2 PMP 502 A 1 HETATM 3 C C2A PMP . . . C 3 -35.702 31.322 -32.884 1 86.25 ? C2A PMP 502 A 1 HETATM 4 C C3 PMP . . . C 3 -35.437 32.481 -35.087 1 77.91 ? C3 PMP 502 A 1 HETATM 5 O O3 PMP . . . C 3 -36.72 32.918 -34.918 1 80.4 ? O3 PMP 502 A 1 HETATM 6 C C4 PMP . . . C 3 -34.65 32.82 -36.206 1 75.35 ? C4 PMP 502 A 1 HETATM 7 C C4A PMP . . . C 3 -35.182 33.678 -37.326 1 71.34 ? C4A PMP 502 A 1 HETATM 8 N N4A PMP . . . C 3 -36.41 34.392 -36.993 1 85.99 ? N4A PMP 502 A 1 HETATM 9 C C5 PMP . . . C 3 -33.335 32.332 -36.278 1 73.82 ? C5 PMP 502 A 1 HETATM 10 C C6 PMP . . . C 3 -32.868 31.551 -35.229 1 68.97 ? C6 PMP 502 A 1 HETATM 11 C C5A PMP . . . C 3 -32.458 32.689 -37.434 1 71.03 ? C5A PMP 502 A 1 HETATM 12 O O4P PMP . . . C 3 -32.261 34.138 -37.379 1 74.31 ? O4P PMP 502 A 1 HETATM 13 P P PMP . . . C 3 -31.673 35.013 -38.602 1 64.69 ? P PMP 502 A 1 HETATM 14 O O1P PMP . . . C 3 -32.579 34.74 -39.789 1 66.63 ? O1P PMP 502 A 1 HETATM 15 O O2P PMP . . . C 3 -30.239 34.521 -38.81 1 65.78 ? O2P PMP 502 A 1 HETATM 16 O O3P PMP . . . C 3 -31.749 36.43 -38.131 1 65.8 ? O3P PMP 502 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #