data_6RV0 # _model_server_result.job_id 5S94rAYeu7yuUUyFYjbzmg _model_server_result.datetime_utc '2024-11-15 03:53:46' _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 6rv0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6RV0 # _exptl.entry_id 6RV0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 248.173 _entity.id 2 _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 90 _cell.entry_id 6RV0 _cell.length_a 90.306 _cell.length_b 90.306 _cell.length_c 142.071 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RV0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 # _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 260 n y N1 C6 PMP sing 261 n y C2 C2A PMP sing 262 n n C2 C3 PMP sing 263 n y C2A H2A1 PMP sing 264 n n C2A H2A2 PMP sing 265 n n C2A H2A3 PMP sing 266 n n C3 O3 PMP sing 267 n n C3 C4 PMP doub 268 n y O3 HO3 PMP sing 269 n n C4 C4A PMP sing 270 n n C4 C5 PMP sing 271 n y C4A N4A PMP sing 272 n n C4A H4A1 PMP sing 273 n n C4A H4A2 PMP sing 274 n n N4A HNA1 PMP sing 275 n n N4A HNA2 PMP sing 276 n n C5 C6 PMP doub 277 n y C5 C5A PMP sing 278 n n C6 H6 PMP sing 279 n n C5A O4P PMP sing 280 n n C5A H5A1 PMP sing 281 n n C5A H5A2 PMP sing 282 n n O4P P PMP sing 283 n n P O1P PMP doub 284 n n P O2P PMP sing 285 n n P O3P PMP sing 286 n n O2P HOP2 PMP sing 287 n n O3P HOP3 PMP sing 288 n n # _atom_sites.entry_id 6RV0 _atom_sites.fract_transf_matrix[1][1] 0.011073 _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] 0.011073 _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] 0.007039 _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 PMP A 1 401 401 PMP PMP . C 3 HOH A 1 501 7 HOH HOH . C 3 HOH A 2 502 3 HOH HOH . C 3 HOH A 3 503 6 HOH HOH . C 3 HOH A 4 504 5 HOH HOH . C 3 HOH A 5 505 4 HOH HOH . C 3 HOH A 6 506 8 HOH HOH . C 3 HOH A 7 507 12 HOH HOH . C 3 HOH A 8 508 1 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 11 HOH HOH . C 3 HOH A 11 511 2 HOH HOH . C 3 HOH A 12 512 13 HOH HOH . C 3 HOH A 13 513 10 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 . . . B 2 13.035 8.361 -15.388 0.75 54.76 ? N1 PMP 401 A 1 HETATM 2 C C2 PMP . . . B 2 13.919 9.054 -16.105 0.75 54.15 ? C2 PMP 401 A 1 HETATM 3 C C2A PMP . . . B 2 13.667 9.293 -17.563 0.75 53.98 ? C2A PMP 401 A 1 HETATM 4 C C3 PMP . . . B 2 15.065 9.583 -15.488 0.75 59.54 ? C3 PMP 401 A 1 HETATM 5 O O3 PMP . . . B 2 15.955 10.309 -16.222 0.75 63.64 ? O3 PMP 401 A 1 HETATM 6 C C4 PMP . . . B 2 15.322 9.365 -14.128 0.75 56.19 ? C4 PMP 401 A 1 HETATM 7 C C4A PMP . . . B 2 16.574 9.963 -13.506 0.75 57.94 ? C4A PMP 401 A 1 HETATM 8 N N4A PMP . . . B 2 17.86 9.423 -14.007 0.75 56.78 ? N4A PMP 401 A 1 HETATM 9 C C5 PMP . . . B 2 14.374 8.631 -13.381 0.75 54.52 ? C5 PMP 401 A 1 HETATM 10 C C6 PMP . . . B 2 13.254 8.158 -14.069 0.75 58.61 ? C6 PMP 401 A 1 HETATM 11 C C5A PMP . . . B 2 14.554 8.342 -11.915 0.75 54.79 ? C5A PMP 401 A 1 HETATM 12 O O4P PMP . . . B 2 14.991 9.505 -11.129 0.75 47.73 ? O4P PMP 401 A 1 HETATM 13 P P PMP . . . B 2 15.55 9.295 -9.607 0.75 49.44 ? P PMP 401 A 1 HETATM 14 O O1P PMP . . . B 2 16.601 8.195 -9.711 0.75 40.77 ? O1P PMP 401 A 1 HETATM 15 O O2P PMP . . . B 2 16.112 10.656 -9.195 0.75 44.46 ? O2P PMP 401 A 1 HETATM 16 O O3P PMP . . . B 2 14.322 8.877 -8.784 0.75 46.37 ? O3P PMP 401 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 16 #