data_1GEY # _model_server_result.job_id C78EpbHeBNPHehXDduY6jw _model_server_result.datetime_utc '2024-10-24 04:29:39' _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 1gey # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":413}' # _entry.id 1GEY # _exptl.entry_id 1GEY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 379.28 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-[(1,3-DICARBOXY-PROPYLAMINO)-METHYL]-3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDINIUM _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 104.25 _cell.angle_gamma 90 _cell.entry_id 1GEY _cell.length_a 133.213 _cell.length_b 63.732 _cell.length_c 46.199 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GEY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _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' 2_555 -x,y,-z -1 0 0 0 1 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 'C13 H20 N2 O9 P 1' _chem_comp.formula_weight 379.28 _chem_comp.id PPE _chem_comp.mon_nstd_flag . _chem_comp.name 4-[(1,3-DICARBOXY-PROPYLAMINO)-METHYL]-3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDINIUM _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "PYRIDOXYL-GLUTAMIC ACID-5'-MONOPHOSPHATE" # 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 PPE sing 260 n y N1 C6 PPE doub 261 n y N1 HN1 PPE sing 262 n n C2 C2A PPE sing 263 n n C2 C3 PPE doub 264 n y C2A H2A1 PPE sing 265 n n C2A H2A2 PPE sing 266 n n C2A H2A3 PPE sing 267 n n C3 O3 PPE sing 268 n n C3 C4 PPE sing 269 n y O3 HO3 PPE sing 270 n n C4 C4A PPE sing 271 n n C4 C5 PPE doub 272 n y C4A NA PPE sing 273 n n C4A H4A1 PPE sing 274 n n C4A H4A2 PPE sing 275 n n C5 C6 PPE sing 276 n y C5 C5A PPE sing 277 n n C6 H6 PPE sing 278 n n C5A OP4 PPE sing 279 n n C5A H5A1 PPE sing 280 n n C5A H5A2 PPE sing 281 n n OP4 P PPE sing 282 n n P OP1 PPE doub 283 n n P OP2 PPE sing 284 n n P OP3 PPE sing 285 n n OP2 HOP2 PPE sing 286 n n OP3 HOP3 PPE sing 287 n n NA CAA PPE sing 288 n n NA HNA PPE sing 289 n n CAA CBA PPE sing 290 n n CAA CA PPE sing 291 n n CAA HAA PPE sing 292 n n CBA CGA PPE sing 293 n n CBA HBA1 PPE sing 294 n n CBA HBA2 PPE sing 295 n n CGA CDA PPE sing 296 n n CGA HGA1 PPE sing 297 n n CGA HGA2 PPE sing 298 n n CDA OE1 PPE doub 299 n n CDA OE2 PPE sing 300 n n OE2 HOE2 PPE sing 301 n n CA OA PPE doub 302 n n CA OXT PPE sing 303 n n OXT HXT PPE sing 304 n n # _atom_sites.entry_id 1GEY _atom_sites.fract_transf_matrix[1][1] 0.00751 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00191 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01569 _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] 0.02233 _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 PPE A 1 413 413 PPE PPE . C 3 HOH A 1 501 501 HOH HOH . C 3 HOH A 2 502 502 HOH HOH . C 3 HOH A 3 503 503 HOH HOH . C 3 HOH A 4 504 504 HOH HOH . C 3 HOH A 5 505 505 HOH HOH . C 3 HOH A 6 506 506 HOH HOH . C 3 HOH A 7 507 507 HOH HOH . C 3 HOH A 8 508 508 HOH HOH . C 3 HOH A 9 509 509 HOH HOH . C 3 HOH A 10 510 510 HOH HOH . C 3 HOH A 11 511 511 HOH HOH . C 3 HOH A 12 512 512 HOH HOH . C 3 HOH A 13 513 513 HOH HOH . C 3 HOH A 14 514 514 HOH HOH . C 3 HOH A 15 515 515 HOH HOH . C 3 HOH A 16 516 516 HOH HOH . C 3 HOH A 17 517 517 HOH HOH . C 3 HOH A 18 518 518 HOH HOH . C 3 HOH A 19 519 519 HOH HOH . C 3 HOH A 20 520 520 HOH HOH . C 3 HOH A 21 521 521 HOH HOH . C 3 HOH A 22 522 522 HOH HOH . C 3 HOH A 23 523 523 HOH HOH . C 3 HOH A 24 524 524 HOH HOH . C 3 HOH A 25 525 525 HOH HOH . C 3 HOH A 26 526 526 HOH HOH . C 3 HOH A 27 527 527 HOH HOH . C 3 HOH A 28 528 528 HOH HOH . C 3 HOH A 29 529 529 HOH HOH . C 3 HOH A 30 530 530 HOH HOH . C 3 HOH A 31 531 531 HOH HOH . C 3 HOH A 32 532 532 HOH HOH . C 3 HOH A 33 533 533 HOH HOH . C 3 HOH A 34 534 534 HOH HOH . C 3 HOH A 35 535 535 HOH HOH . C 3 HOH A 36 536 536 HOH HOH . C 3 HOH A 37 537 537 HOH HOH . C 3 HOH A 38 538 538 HOH HOH . C 3 HOH A 39 539 539 HOH HOH . C 3 HOH A 40 540 540 HOH HOH . C 3 HOH A 41 541 541 HOH HOH . C 3 HOH A 42 542 542 HOH HOH . C 3 HOH A 43 543 543 HOH HOH . C 3 HOH A 44 544 544 HOH HOH . C 3 HOH A 45 545 545 HOH HOH . C 3 HOH A 46 546 546 HOH HOH . C 3 HOH A 47 547 547 HOH HOH . C 3 HOH A 48 548 548 HOH HOH . C 3 HOH A 49 549 549 HOH HOH . C 3 HOH A 50 550 550 HOH HOH . C 3 HOH A 51 551 551 HOH HOH . C 3 HOH A 52 552 552 HOH HOH . C 3 HOH A 53 553 553 HOH HOH . C 3 HOH A 54 554 554 HOH HOH . C 3 HOH A 55 555 555 HOH HOH . C 3 HOH A 56 556 556 HOH HOH . C 3 HOH A 57 557 557 HOH HOH . C 3 HOH A 58 558 558 HOH HOH . C 3 HOH A 59 559 559 HOH HOH . C 3 HOH A 60 560 560 HOH HOH . C 3 HOH A 61 561 561 HOH HOH . C 3 HOH A 62 562 562 HOH HOH . C 3 HOH A 63 563 563 HOH HOH . C 3 HOH A 64 564 564 HOH HOH . C 3 HOH A 65 565 565 HOH HOH . C 3 HOH A 66 566 566 HOH HOH . C 3 HOH A 67 567 567 HOH HOH . C 3 HOH A 68 568 568 HOH HOH . C 3 HOH A 69 569 569 HOH HOH . C 3 HOH A 70 570 570 HOH HOH . C 3 HOH A 71 571 571 HOH HOH . C 3 HOH A 72 572 572 HOH HOH . C 3 HOH A 73 573 573 HOH HOH . C 3 HOH A 74 574 574 HOH HOH . C 3 HOH A 75 575 575 HOH HOH . C 3 HOH A 76 576 576 HOH HOH . C 3 HOH A 77 577 577 HOH HOH . C 3 HOH A 78 578 578 HOH HOH . C 3 HOH A 79 579 579 HOH HOH . C 3 HOH A 80 580 580 HOH HOH . C 3 HOH A 81 581 581 HOH HOH . C 3 HOH A 82 582 582 HOH HOH . C 3 HOH A 83 583 583 HOH HOH . C 3 HOH A 84 584 584 HOH HOH . C 3 HOH A 85 585 585 HOH HOH . C 3 HOH A 86 586 586 HOH HOH . C 3 HOH A 87 587 587 HOH HOH . C 3 HOH A 88 588 588 HOH HOH . C 3 HOH A 89 589 589 HOH HOH . C 3 HOH A 90 590 590 HOH HOH . C 3 HOH A 91 591 591 HOH HOH . C 3 HOH A 92 592 592 HOH HOH . C 3 HOH A 93 593 593 HOH HOH . C 3 HOH A 94 594 594 HOH HOH . C 3 HOH A 95 595 595 HOH HOH . C 3 HOH A 96 596 596 HOH HOH . C 3 HOH A 97 597 597 HOH HOH . C 3 HOH A 98 598 598 HOH HOH . C 3 HOH A 99 599 599 HOH HOH . C 3 HOH A 100 600 600 HOH HOH . C 3 HOH A 101 601 601 HOH HOH . C 3 HOH A 102 602 602 HOH HOH . C 3 HOH A 103 603 603 HOH HOH . C 3 HOH A 104 604 604 HOH HOH . C 3 HOH A 105 605 605 HOH HOH . C 3 HOH A 106 606 606 HOH HOH . C 3 HOH A 107 607 607 HOH HOH . C 3 HOH A 108 608 608 HOH HOH . C 3 HOH A 109 609 609 HOH HOH . C 3 HOH A 110 610 610 HOH HOH . C 3 HOH A 111 611 611 HOH HOH . C 3 HOH A 112 612 612 HOH HOH . C 3 HOH A 113 613 613 HOH HOH . C 3 HOH A 114 614 614 HOH HOH . C 3 HOH A 115 615 615 HOH HOH . C 3 HOH A 116 616 616 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 PPE . . . B 2 15.958 24.53 2.122 1 24.13 ? N1 PPE 413 A 1 HETATM 2 C C2 PPE . . . B 2 16.807 24.87 3.128 1 15.8 ? C2 PPE 413 A 1 HETATM 3 C C2A PPE . . . B 2 18.198 24.246 3.153 1 11.91 ? C2A PPE 413 A 1 HETATM 4 C C3 PPE . . . B 2 16.392 25.749 4.096 1 18.22 ? C3 PPE 413 A 1 HETATM 5 O O3 PPE . . . B 2 17.231 26.086 5.112 1 20.1 ? O3 PPE 413 A 1 HETATM 6 C C4 PPE . . . B 2 15.101 26.284 4.039 1 20.63 ? C4 PPE 413 A 1 HETATM 7 C C4A PPE . . . B 2 14.622 27.211 5.081 1 25.71 ? C4A PPE 413 A 1 HETATM 8 C C5 PPE . . . B 2 14.248 25.901 2.965 1 22.33 ? C5 PPE 413 A 1 HETATM 9 C C6 PPE . . . B 2 14.703 25.028 2.033 1 19.78 ? C6 PPE 413 A 1 HETATM 10 C C5A PPE . . . B 2 12.838 26.42 2.734 1 15.8 ? C5A PPE 413 A 1 HETATM 11 O OP4 PPE . . . B 2 12.622 27.783 2.555 1 14.56 ? OP4 PPE 413 A 1 HETATM 12 P P PPE . . . B 2 11.244 28.37 2.093 1 11.81 ? P PPE 413 A 1 HETATM 13 O OP1 PPE . . . B 2 11.456 28.942 0.749 1 16.36 ? OP1 PPE 413 A 1 HETATM 14 O OP2 PPE . . . B 2 11.072 29.489 3.193 1 13.1 ? OP2 PPE 413 A 1 HETATM 15 O OP3 PPE . . . B 2 10.19 27.357 2.268 1 19.88 ? OP3 PPE 413 A 1 HETATM 16 N NA PPE . . . B 2 14.961 26.68 6.406 1 33.25 ? NA PPE 413 A 1 HETATM 17 C CAA PPE . . . B 2 14.901 27.723 7.453 1 35.81 ? CAA PPE 413 A 1 HETATM 18 C CBA PPE . . . B 2 13.503 27.736 8.085 1 36.49 ? CBA PPE 413 A 1 HETATM 19 C CGA PPE . . . B 2 13.278 28.835 9.119 1 41.68 ? CGA PPE 413 A 1 HETATM 20 C CDA PPE . . . B 2 11.916 28.754 9.793 1 47.95 ? CDA PPE 413 A 1 HETATM 21 O OE1 PPE . . . B 2 11.197 27.754 9.575 1 55.95 ? OE1 PPE 413 A 1 HETATM 22 O OE2 PPE . . . B 2 11.563 29.691 10.546 1 45.57 ? OE2 PPE 413 A 1 HETATM 23 C CA PPE . . . B 2 15.969 27.47 8.547 1 35.71 ? CA PPE 413 A 1 HETATM 24 O OA PPE . . . B 2 16.282 28.395 9.322 1 37.45 ? OA PPE 413 A 1 HETATM 25 O OXT PPE . . . B 2 16.502 26.346 8.655 1 35.55 ? OXT PPE 413 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 25 #