data_6PRX # _model_server_result.job_id XjKpjdR8IYS-f6vHq12Jfw _model_server_result.datetime_utc '2024-12-23 06:10:03' _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 6prx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":400}' # _entry.id 6PRX # _exptl.entry_id 6PRX _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 6PRX _cell.length_a 69.204 _cell.length_b 104.938 _cell.length_c 106.294 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PRX _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 C N N ? 2 D N 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 covale ? covale1 A C LEU 125 A LEU 107 1_555 A N OCS 126 A OCS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale2 A C OCS 126 A OCS 108 1_555 A N LEU 127 A LEU 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale3 A NZ LYS 220 A LYS 202 1_555 C C4A PLP . A PLP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.278 ? covale ? covale4 A C ALA 332 A ALA 314 1_555 A N OCS 333 A OCS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale5 A C OCS 333 A OCS 315 1_555 A N GLN 334 A GLN 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale6 B C LEU 125 B LEU 107 1_555 B N OCS 126 B OCS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale7 B C OCS 126 B OCS 108 1_555 B N LEU 127 B LEU 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale8 B NZ LYS 220 B LYS 202 1_555 D C4A PLP . B PLP 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.268 ? covale ? covale9 B C ALA 332 B ALA 314 1_555 B N OCS 333 B OCS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale10 B C OCS 333 B OCS 315 1_555 B N GLN 334 B GLN 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? # _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 274 n y N1 C6 PLP sing 275 n y C2 C2A PLP sing 276 n n C2 C3 PLP sing 277 n y C2A H2A1 PLP sing 278 n n C2A H2A2 PLP sing 279 n n C2A H2A3 PLP sing 280 n n C3 O3 PLP sing 281 n n C3 C4 PLP doub 282 n y O3 HO3 PLP sing 283 n n C4 C4A PLP sing 284 n n C4 C5 PLP sing 285 n y C4A O4A PLP doub 286 n n C4A H4A PLP sing 287 n n C5 C6 PLP doub 288 n y C5 C5A PLP sing 289 n n C6 H6 PLP sing 290 n n C5A O4P PLP sing 291 n n C5A H5A1 PLP sing 292 n n C5A H5A2 PLP sing 293 n n O4P P PLP sing 294 n n P O1P PLP doub 295 n n P O2P PLP sing 296 n n P O3P PLP sing 297 n n O2P HOP2 PLP sing 298 n n O3P HOP3 PLP sing 299 n n # _atom_sites.entry_id 6PRX _atom_sites.fract_transf_matrix[1][1] 0.01445 _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] 0.009529 _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] 0.009408 _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 C 2 PLP A 1 401 401 PLP PLP . D 2 PLP B 1 400 400 PLP PLP . # 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 . . . D 2 21.078 3.547 -30.554 1 45.95 ? N1 PLP 400 B 1 HETATM 2 C C2 PLP . . . D 2 20.101 4.349 -30.132 1 45.48 ? C2 PLP 400 B 1 HETATM 3 C C2A PLP . . . D 2 19.429 4.046 -28.832 1 45.35 ? C2A PLP 400 B 1 HETATM 4 C C3 PLP . . . D 2 19.713 5.46 -30.895 1 45.05 ? C3 PLP 400 B 1 HETATM 5 O O3 PLP . . . D 2 18.714 6.237 -30.425 1 45.12 ? O3 PLP 400 B 1 HETATM 6 C C4 PLP . . . D 2 20.359 5.727 -32.12 1 44.74 ? C4 PLP 400 B 1 HETATM 7 C C4A PLP . . . D 2 19.945 6.884 -32.919 1 42.48 ? C4A PLP 400 B 1 HETATM 8 C C5 PLP . . . D 2 21.382 4.857 -32.535 1 45.5 ? C5 PLP 400 B 1 HETATM 9 C C6 PLP . . . D 2 21.7 3.8 -31.726 1 45.74 ? C6 PLP 400 B 1 HETATM 10 C C5A PLP . . . D 2 22.135 5.062 -33.819 1 45.94 ? C5A PLP 400 B 1 HETATM 11 O O4P PLP . . . D 2 21.569 4.25 -34.894 1 46.35 ? O4P PLP 400 B 1 HETATM 12 P P PLP . . . D 2 22.38 4.048 -36.271 1 47.4 ? P PLP 400 B 1 HETATM 13 O O1P PLP . . . D 2 21.334 3.691 -37.312 1 46.51 ? O1P PLP 400 B 1 HETATM 14 O O2P PLP . . . D 2 23.058 5.374 -36.544 1 47.06 ? O2P PLP 400 B 1 HETATM 15 O O3P PLP . . . D 2 23.374 2.926 -36.012 1 47.51 ? O3P PLP 400 B 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 380 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 15 #