data_4ZU6 # _model_server_result.job_id 6YO-XDvjnRpNRpraLcQDRA _model_server_result.datetime_utc '2024-11-26 01:31:22' _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 4zu6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 4ZU6 # _exptl.entry_id 4ZU6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 4 _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 4ZU6 _cell.length_a 112.634 _cell.length_b 112.634 _cell.length_c 43.49 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZU6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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 # _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 # _struct_asym.details ? _struct_asym.entity_id 4 _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 278 n y N1 C6 PLP sing 279 n y C2 C2A PLP sing 280 n n C2 C3 PLP sing 281 n y C2A H2A1 PLP sing 282 n n C2A H2A2 PLP sing 283 n n C2A H2A3 PLP sing 284 n n C3 O3 PLP sing 285 n n C3 C4 PLP doub 286 n y O3 HO3 PLP sing 287 n n C4 C4A PLP sing 288 n n C4 C5 PLP sing 289 n y C4A O4A PLP doub 290 n n C4A H4A PLP sing 291 n n C5 C6 PLP doub 292 n y C5 C5A PLP sing 293 n n C6 H6 PLP sing 294 n n C5A O4P PLP sing 295 n n C5A H5A1 PLP sing 296 n n C5A H5A2 PLP sing 297 n n O4P P PLP sing 298 n n P O1P PLP doub 299 n n P O2P PLP sing 300 n n P O3P PLP sing 301 n n O2P HOP2 PLP sing 302 n n O3P HOP3 PLP sing 303 n n # _atom_sites.entry_id 4ZU6 _atom_sites.fract_transf_matrix[1][1] 0.008878 _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] 0.008878 _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] 0.022994 _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 3 OAS X 1 401 401 OAS OAS . D 4 PLP X 1 402 402 PLP PLP . E 5 HOH X 1 501 537 HOH HOH . E 5 HOH X 2 502 543 HOH HOH . E 5 HOH X 3 503 570 HOH HOH . E 5 HOH X 4 504 528 HOH HOH . E 5 HOH X 5 505 564 HOH HOH . E 5 HOH X 6 506 524 HOH HOH . E 5 HOH X 7 507 555 HOH HOH . E 5 HOH X 8 508 546 HOH HOH . E 5 HOH X 9 509 516 HOH HOH . E 5 HOH X 10 510 514 HOH HOH . E 5 HOH X 11 511 553 HOH HOH . E 5 HOH X 12 512 567 HOH HOH . E 5 HOH X 13 513 502 HOH HOH . E 5 HOH X 14 514 513 HOH HOH . E 5 HOH X 15 515 561 HOH HOH . E 5 HOH X 16 516 565 HOH HOH . E 5 HOH X 17 517 562 HOH HOH . E 5 HOH X 18 518 510 HOH HOH . E 5 HOH X 19 519 548 HOH HOH . E 5 HOH X 20 520 536 HOH HOH . E 5 HOH X 21 521 522 HOH HOH . E 5 HOH X 22 522 538 HOH HOH . E 5 HOH X 23 523 507 HOH HOH . E 5 HOH X 24 524 550 HOH HOH . E 5 HOH X 25 525 506 HOH HOH . E 5 HOH X 26 526 547 HOH HOH . E 5 HOH X 27 527 563 HOH HOH . E 5 HOH X 28 528 554 HOH HOH . E 5 HOH X 29 529 568 HOH HOH . E 5 HOH X 30 530 526 HOH HOH . E 5 HOH X 31 531 515 HOH HOH . E 5 HOH X 32 532 556 HOH HOH . E 5 HOH X 33 533 558 HOH HOH . E 5 HOH X 34 534 511 HOH HOH . E 5 HOH X 35 535 519 HOH HOH . E 5 HOH X 36 536 512 HOH HOH . E 5 HOH X 37 537 530 HOH HOH . E 5 HOH X 38 538 545 HOH HOH . E 5 HOH X 39 539 520 HOH HOH . E 5 HOH X 40 540 518 HOH HOH . E 5 HOH X 41 541 504 HOH HOH . E 5 HOH X 42 542 542 HOH HOH . E 5 HOH X 43 543 529 HOH HOH . E 5 HOH X 44 544 532 HOH HOH . E 5 HOH X 45 545 505 HOH HOH . E 5 HOH X 46 546 539 HOH HOH . E 5 HOH X 47 547 503 HOH HOH . E 5 HOH X 48 548 501 HOH HOH . E 5 HOH X 49 549 551 HOH HOH . E 5 HOH X 50 550 552 HOH HOH . E 5 HOH X 51 551 560 HOH HOH . E 5 HOH X 52 552 509 HOH HOH . E 5 HOH X 53 553 525 HOH HOH . E 5 HOH X 54 554 544 HOH HOH . E 5 HOH X 55 555 566 HOH HOH . E 5 HOH X 56 556 569 HOH HOH . E 5 HOH X 57 557 531 HOH HOH . E 5 HOH X 58 558 533 HOH HOH . E 5 HOH X 59 559 508 HOH HOH . E 5 HOH X 60 560 523 HOH HOH . E 5 HOH X 61 561 549 HOH HOH . E 5 HOH X 62 562 517 HOH HOH . E 5 HOH X 63 563 535 HOH HOH . E 5 HOH X 64 564 521 HOH HOH . E 5 HOH X 65 565 527 HOH HOH . E 5 HOH X 66 566 559 HOH HOH . E 5 HOH X 67 567 541 HOH HOH . E 5 HOH X 68 568 534 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 4 125.766 118.797 -12.993 1 26.07 ? N1 PLP 402 X 1 HETATM 2 C C2 PLP . . . D 4 125.444 117.574 -12.443 1 23.48 ? C2 PLP 402 X 1 HETATM 3 C C2A PLP . . . D 4 124.22 117.427 -11.584 1 25.52 ? C2A PLP 402 X 1 HETATM 4 C C3 PLP . . . D 4 126.278 116.493 -12.684 1 31.25 ? C3 PLP 402 X 1 HETATM 5 O O3 PLP . . . D 4 125.973 115.26 -12.155 1 29.03 ? O3 PLP 402 X 1 HETATM 6 C C4 PLP . . . D 4 127.413 116.672 -13.486 1 28.82 ? C4 PLP 402 X 1 HETATM 7 C C4A PLP . . . D 4 128.3 115.527 -13.797 1 31.47 ? C4A PLP 402 X 1 HETATM 8 O O4A PLP . . . D 4 127.87 114.413 -13.519 1 43.6 ? O4A PLP 402 X 1 HETATM 9 C C5 PLP . . . D 4 127.724 117.899 -14.057 1 27.45 ? C5 PLP 402 X 1 HETATM 10 C C6 PLP . . . D 4 126.882 118.965 -13.791 1 24.67 ? C6 PLP 402 X 1 HETATM 11 C C5A PLP . . . D 4 128.978 118.066 -14.918 1 23.69 ? C5A PLP 402 X 1 HETATM 12 O O4P PLP . . . D 4 128.986 117.299 -16.111 1 26.64 ? O4P PLP 402 X 1 HETATM 13 P P PLP . . . D 4 130.382 116.773 -16.765 1 26.89 ? P PLP 402 X 1 HETATM 14 O O1P PLP . . . D 4 130.199 116.258 -18.184 1 24.3 ? O1P PLP 402 X 1 HETATM 15 O O2P PLP . . . D 4 130.881 115.645 -15.881 1 24.09 ? O2P PLP 402 X 1 HETATM 16 O O3P PLP . . . D 4 131.369 117.937 -16.727 1 26.46 ? O3P PLP 402 X 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 16 #