data_6TM7 # _model_server_result.job_id -mBIF7_ApW-Tn3MBNDALFQ _model_server_result.datetime_utc '2024-10-20 00:44:57' _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 6tm7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 6TM7 # _exptl.entry_id 6TM7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-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 6TM7 _cell.length_a 63.27 _cell.length_b 102.66 _cell.length_c 157.3 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TM7 _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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,D,E,G 1 1 A,C,F 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' 4_455 x-1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 -31.635 51.33 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 6TM7 _atom_sites.fract_transf_matrix[1][1] 0.015805 _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] 0.009741 _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] 0.006357 _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 SO4 A 1 301 301 SO4 SO4 . D 3 PLP B 1 301 301 PLP PLP . E 2 SO4 B 1 302 302 SO4 SO4 . F 4 HOH A 1 401 401 HOH HOH . F 4 HOH A 2 402 402 HOH HOH . F 4 HOH A 3 403 403 HOH HOH . F 4 HOH A 4 404 404 HOH HOH . F 4 HOH A 5 405 405 HOH HOH . F 4 HOH A 6 406 406 HOH HOH . F 4 HOH A 7 407 407 HOH HOH . F 4 HOH A 8 408 408 HOH HOH . F 4 HOH A 9 409 409 HOH HOH . F 4 HOH A 10 410 410 HOH HOH . F 4 HOH A 11 411 411 HOH HOH . F 4 HOH A 12 412 412 HOH HOH . F 4 HOH A 13 413 413 HOH HOH . F 4 HOH A 14 414 414 HOH HOH . F 4 HOH A 15 415 415 HOH HOH . F 4 HOH A 16 416 416 HOH HOH . F 4 HOH A 17 417 417 HOH HOH . F 4 HOH A 18 418 418 HOH HOH . F 4 HOH A 19 419 419 HOH HOH . F 4 HOH A 20 420 420 HOH HOH . F 4 HOH A 21 421 421 HOH HOH . F 4 HOH A 22 422 422 HOH HOH . F 4 HOH A 23 423 423 HOH HOH . F 4 HOH A 24 424 424 HOH HOH . G 4 HOH B 1 401 401 HOH HOH . G 4 HOH B 2 402 402 HOH HOH . G 4 HOH B 3 403 403 HOH HOH . G 4 HOH B 4 404 404 HOH HOH . G 4 HOH B 5 405 405 HOH HOH . G 4 HOH B 6 406 406 HOH HOH . G 4 HOH B 7 407 407 HOH HOH . G 4 HOH B 8 408 408 HOH HOH . G 4 HOH B 9 409 409 HOH HOH . G 4 HOH B 10 410 410 HOH HOH . G 4 HOH B 11 411 411 HOH HOH . G 4 HOH B 12 412 412 HOH HOH . G 4 HOH B 13 413 413 HOH HOH . G 4 HOH B 14 414 414 HOH HOH . G 4 HOH B 15 415 415 HOH HOH . G 4 HOH B 16 416 416 HOH HOH . G 4 HOH B 17 417 417 HOH HOH . G 4 HOH B 18 418 418 HOH HOH . G 4 HOH B 19 419 419 HOH HOH . G 4 HOH B 20 420 420 HOH HOH . G 4 HOH B 21 421 421 HOH HOH . G 4 HOH B 22 422 422 HOH HOH . G 4 HOH B 23 423 423 HOH HOH . G 4 HOH B 24 424 424 HOH HOH . G 4 HOH B 25 425 425 HOH HOH . G 4 HOH B 26 426 426 HOH HOH . G 4 HOH B 27 427 427 HOH HOH . G 4 HOH B 28 428 428 HOH HOH . G 4 HOH B 29 429 429 HOH HOH . G 4 HOH B 30 430 430 HOH HOH . G 4 HOH B 31 431 431 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 . . . D 3 6.909 7.772 -18.62 1 139.93 ? N1 PLP 301 B 1 HETATM 2 C C2 PLP . . . D 3 6.415 7.561 -19.842 1 131.02 ? C2 PLP 301 B 1 HETATM 3 C C2A PLP . . . D 3 4.965 7.219 -19.985 1 110.9 ? C2A PLP 301 B 1 HETATM 4 C C3 PLP . . . D 3 7.257 7.664 -20.968 1 125.31 ? C3 PLP 301 B 1 HETATM 5 O O3 PLP . . . D 3 6.713 7.445 -22.193 1 114.51 ? O3 PLP 301 B 1 HETATM 6 C C4 PLP . . . D 3 8.624 7.995 -20.786 1 117.38 ? C4 PLP 301 B 1 HETATM 7 C C4A PLP . . . D 3 9.506 8.086 -21.948 1 101.56 ? C4A PLP 301 B 1 HETATM 8 O O4A PLP . . . D 3 10.34 7.258 -22.223 1 93.91 ? O4A PLP 301 B 1 HETATM 9 C C5 PLP . . . D 3 9.114 8.217 -19.481 1 118.06 ? C5 PLP 301 B 1 HETATM 10 C C6 PLP . . . D 3 8.218 8.081 -18.449 1 131.48 ? C6 PLP 301 B 1 HETATM 11 C C5A PLP . . . D 3 10.563 8.546 -19.185 1 101.04 ? C5A PLP 301 B 1 HETATM 12 O O4P PLP . . . D 3 11.087 9.846 -19.641 1 93.59 ? O4P PLP 301 B 1 HETATM 13 P P PLP . . . D 3 12.69 10.22 -19.93 1 74 ? P PLP 301 B 1 HETATM 14 O O1P PLP . . . D 3 13.179 9.234 -20.96 1 90.73 ? O1P PLP 301 B 1 HETATM 15 O O2P PLP . . . D 3 12.806 11.646 -20.453 1 59.33 ? O2P PLP 301 B 1 HETATM 16 O O3P PLP . . . D 3 13.379 10.002 -18.614 1 69.49 ? O3P PLP 301 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #