data_8RAI # _model_server_result.job_id ZUa_74gDmTCKwVicfT9GCw _model_server_result.datetime_utc '2024-11-24 08:24:07' _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 8rai # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 8RAI # _exptl.entry_id 8RAI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 337.268 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[6-methyl-5-oxidanyl-4-[(2-phenylhydrazinyl)methyl]pyridin-3-yl]methyl dihydrogen 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 100.77 _cell.angle_gamma 90 _cell.entry_id 8RAI _cell.length_a 85.749 _cell.length_b 72.75 _cell.length_c 52.341 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RAI _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 1,2 # 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_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 75.968196 0 51.419025 # _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 'C14 H16 N3 O5 P' _chem_comp.formula_weight 337.268 _chem_comp.id ZXN _chem_comp.mon_nstd_flag . _chem_comp.name '[6-methyl-5-oxidanyl-4-[(2-phenylhydrazinyl)methyl]pyridin-3-yl]methyl dihydrogen phosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 CE2 CZ ZXN doub 389 n y CE2 CD2 ZXN sing 390 n y CZ CE1 ZXN sing 391 n y CD2 CG ZXN doub 392 n y C2A C2 ZXN sing 393 n n CE1 CD1 ZXN doub 394 n y O3 C3 ZXN sing 395 n n CG CD1 ZXN sing 396 n y CG N' ZXN sing 397 n n C2 C3 ZXN doub 398 n y C2 N1 ZXN sing 399 n y C3 C4 ZXN sing 400 n y N N' ZXN sing 401 n n N C4A ZXN doub 402 e n N1 C6 ZXN doub 403 n y C4A C4 ZXN sing 404 n n C4 C5 ZXN doub 405 n y C6 C5 ZXN sing 406 n y C5 C5A ZXN sing 407 n n C5A O4P ZXN sing 408 n n O4P P ZXN sing 409 n n O1P P ZXN doub 410 n n P O2P ZXN sing 411 n n P O3P ZXN sing 412 n n C6 H2 ZXN sing 413 n n C2A H3 ZXN sing 414 n n C2A H4 ZXN sing 415 n n C2A H5 ZXN sing 416 n n O3 H6 ZXN sing 417 n n C4A H7 ZXN sing 418 n n C5A H9 ZXN sing 419 n n C5A H10 ZXN sing 420 n n O2P H11 ZXN sing 421 n n O3P H12 ZXN sing 422 n n N' H13 ZXN sing 423 n n CD2 H14 ZXN sing 424 n n CE2 H15 ZXN sing 425 n n CZ H16 ZXN sing 426 n n CE1 H17 ZXN sing 427 n n CD1 H18 ZXN sing 428 n n # _atom_sites.entry_id 8RAI _atom_sites.fract_transf_matrix[1][1] 0.011662 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002219 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013746 _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] 0.019448 _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 ZXN A 1 301 301 ZXN 00E . C 3 GOL A 1 302 302 GOL GOL . D 4 HOH A 1 401 148 HOH HOH . D 4 HOH A 2 402 174 HOH HOH . D 4 HOH A 3 403 142 HOH HOH . D 4 HOH A 4 404 109 HOH HOH . D 4 HOH A 5 405 189 HOH HOH . D 4 HOH A 6 406 75 HOH HOH . D 4 HOH A 7 407 171 HOH HOH . D 4 HOH A 8 408 196 HOH HOH . D 4 HOH A 9 409 158 HOH HOH . D 4 HOH A 10 410 94 HOH HOH . D 4 HOH A 11 411 140 HOH HOH . D 4 HOH A 12 412 96 HOH HOH . D 4 HOH A 13 413 48 HOH HOH . D 4 HOH A 14 414 87 HOH HOH . D 4 HOH A 15 415 39 HOH HOH . D 4 HOH A 16 416 220 HOH HOH . D 4 HOH A 17 417 117 HOH HOH . D 4 HOH A 18 418 5 HOH HOH . D 4 HOH A 19 419 32 HOH HOH . D 4 HOH A 20 420 215 HOH HOH . D 4 HOH A 21 421 6 HOH HOH . D 4 HOH A 22 422 79 HOH HOH . D 4 HOH A 23 423 129 HOH HOH . D 4 HOH A 24 424 176 HOH HOH . D 4 HOH A 25 425 182 HOH HOH . D 4 HOH A 26 426 19 HOH HOH . D 4 HOH A 27 427 22 HOH HOH . D 4 HOH A 28 428 207 HOH HOH . D 4 HOH A 29 429 165 HOH HOH . D 4 HOH A 30 430 119 HOH HOH . D 4 HOH A 31 431 4 HOH HOH . D 4 HOH A 32 432 132 HOH HOH . D 4 HOH A 33 433 66 HOH HOH . D 4 HOH A 34 434 36 HOH HOH . D 4 HOH A 35 435 15 HOH HOH . D 4 HOH A 36 436 213 HOH HOH . D 4 HOH A 37 437 133 HOH HOH . D 4 HOH A 38 438 100 HOH HOH . D 4 HOH A 39 439 155 HOH HOH . D 4 HOH A 40 440 86 HOH HOH . D 4 HOH A 41 441 118 HOH HOH . D 4 HOH A 42 442 85 HOH HOH . D 4 HOH A 43 443 206 HOH HOH . D 4 HOH A 44 444 172 HOH HOH . D 4 HOH A 45 445 93 HOH HOH . D 4 HOH A 46 446 1 HOH HOH . D 4 HOH A 47 447 166 HOH HOH . D 4 HOH A 48 448 177 HOH HOH . D 4 HOH A 49 449 169 HOH HOH . D 4 HOH A 50 450 33 HOH HOH . D 4 HOH A 51 451 10 HOH HOH . D 4 HOH A 52 452 17 HOH HOH . D 4 HOH A 53 453 145 HOH HOH . D 4 HOH A 54 454 135 HOH HOH . D 4 HOH A 55 455 88 HOH HOH . D 4 HOH A 56 456 103 HOH HOH . D 4 HOH A 57 457 156 HOH HOH . D 4 HOH A 58 458 31 HOH HOH . D 4 HOH A 59 459 12 HOH HOH . D 4 HOH A 60 460 126 HOH HOH . D 4 HOH A 61 461 153 HOH HOH . D 4 HOH A 62 462 137 HOH HOH . D 4 HOH A 63 463 55 HOH HOH . D 4 HOH A 64 464 7 HOH HOH . D 4 HOH A 65 465 81 HOH HOH . D 4 HOH A 66 466 112 HOH HOH . D 4 HOH A 67 467 21 HOH HOH . D 4 HOH A 68 468 37 HOH HOH . D 4 HOH A 69 469 8 HOH HOH . D 4 HOH A 70 470 191 HOH HOH . D 4 HOH A 71 471 106 HOH HOH . D 4 HOH A 72 472 185 HOH HOH . D 4 HOH A 73 473 108 HOH HOH . D 4 HOH A 74 474 65 HOH HOH . D 4 HOH A 75 475 101 HOH HOH . D 4 HOH A 76 476 24 HOH HOH . D 4 HOH A 77 477 192 HOH HOH . D 4 HOH A 78 478 59 HOH HOH . D 4 HOH A 79 479 82 HOH HOH . D 4 HOH A 80 480 3 HOH HOH . D 4 HOH A 81 481 69 HOH HOH . D 4 HOH A 82 482 143 HOH HOH . D 4 HOH A 83 483 131 HOH HOH . D 4 HOH A 84 484 216 HOH HOH . D 4 HOH A 85 485 76 HOH HOH . D 4 HOH A 86 486 38 HOH HOH . D 4 HOH A 87 487 9 HOH HOH . D 4 HOH A 88 488 58 HOH HOH . D 4 HOH A 89 489 162 HOH HOH . D 4 HOH A 90 490 136 HOH HOH . D 4 HOH A 91 491 14 HOH HOH . D 4 HOH A 92 492 139 HOH HOH . D 4 HOH A 93 493 214 HOH HOH . D 4 HOH A 94 494 68 HOH HOH . D 4 HOH A 95 495 67 HOH HOH . D 4 HOH A 96 496 89 HOH HOH . D 4 HOH A 97 497 61 HOH HOH . D 4 HOH A 98 498 72 HOH HOH . D 4 HOH A 99 499 43 HOH HOH . D 4 HOH A 100 500 208 HOH HOH . D 4 HOH A 101 501 51 HOH HOH . D 4 HOH A 102 502 34 HOH HOH . D 4 HOH A 103 503 159 HOH HOH . D 4 HOH A 104 504 27 HOH HOH . D 4 HOH A 105 505 138 HOH HOH . D 4 HOH A 106 506 98 HOH HOH . D 4 HOH A 107 507 163 HOH HOH . D 4 HOH A 108 508 41 HOH HOH . D 4 HOH A 109 509 44 HOH HOH . D 4 HOH A 110 510 122 HOH HOH . D 4 HOH A 111 511 42 HOH HOH . D 4 HOH A 112 512 90 HOH HOH . D 4 HOH A 113 513 84 HOH HOH . D 4 HOH A 114 514 2 HOH HOH . D 4 HOH A 115 515 30 HOH HOH . D 4 HOH A 116 516 18 HOH HOH . D 4 HOH A 117 517 147 HOH HOH . D 4 HOH A 118 518 221 HOH HOH . D 4 HOH A 119 519 26 HOH HOH . D 4 HOH A 120 520 219 HOH HOH . D 4 HOH A 121 521 150 HOH HOH . D 4 HOH A 122 522 71 HOH HOH . D 4 HOH A 123 523 209 HOH HOH . D 4 HOH A 124 524 120 HOH HOH . D 4 HOH A 125 525 128 HOH HOH . D 4 HOH A 126 526 154 HOH HOH . D 4 HOH A 127 527 180 HOH HOH . D 4 HOH A 128 528 11 HOH HOH . D 4 HOH A 129 529 13 HOH HOH . D 4 HOH A 130 530 115 HOH HOH . D 4 HOH A 131 531 23 HOH HOH . D 4 HOH A 132 532 125 HOH HOH . D 4 HOH A 133 533 54 HOH HOH . D 4 HOH A 134 534 127 HOH HOH . D 4 HOH A 135 535 134 HOH HOH . D 4 HOH A 136 536 184 HOH HOH . D 4 HOH A 137 537 49 HOH HOH . D 4 HOH A 138 538 25 HOH HOH . D 4 HOH A 139 539 114 HOH HOH . D 4 HOH A 140 540 164 HOH HOH . D 4 HOH A 141 541 46 HOH HOH . D 4 HOH A 142 542 222 HOH HOH . D 4 HOH A 143 543 190 HOH HOH . D 4 HOH A 144 544 83 HOH HOH . D 4 HOH A 145 545 144 HOH HOH . D 4 HOH A 146 546 95 HOH HOH . D 4 HOH A 147 547 105 HOH HOH . D 4 HOH A 148 548 97 HOH HOH . D 4 HOH A 149 549 92 HOH HOH . D 4 HOH A 150 550 45 HOH HOH . D 4 HOH A 151 551 121 HOH HOH . D 4 HOH A 152 552 73 HOH HOH . D 4 HOH A 153 553 91 HOH HOH . D 4 HOH A 154 554 47 HOH HOH . D 4 HOH A 155 555 161 HOH HOH . D 4 HOH A 156 556 20 HOH HOH . D 4 HOH A 157 557 35 HOH HOH . D 4 HOH A 158 558 50 HOH HOH . D 4 HOH A 159 559 157 HOH HOH . D 4 HOH A 160 560 130 HOH HOH . D 4 HOH A 161 561 110 HOH HOH . D 4 HOH A 162 562 60 HOH HOH . D 4 HOH A 163 563 99 HOH HOH . D 4 HOH A 164 564 16 HOH HOH . D 4 HOH A 165 565 187 HOH HOH . D 4 HOH A 166 566 107 HOH HOH . D 4 HOH A 167 567 200 HOH HOH . D 4 HOH A 168 568 186 HOH HOH . D 4 HOH A 169 569 111 HOH HOH . D 4 HOH A 170 570 29 HOH HOH . D 4 HOH A 171 571 52 HOH HOH . D 4 HOH A 172 572 170 HOH HOH . D 4 HOH A 173 573 167 HOH HOH . D 4 HOH A 174 574 123 HOH HOH . D 4 HOH A 175 575 40 HOH HOH . D 4 HOH A 176 576 210 HOH HOH . D 4 HOH A 177 577 168 HOH HOH . D 4 HOH A 178 578 212 HOH HOH . D 4 HOH A 179 579 77 HOH HOH . D 4 HOH A 180 580 146 HOH HOH . D 4 HOH A 181 581 181 HOH HOH . D 4 HOH A 182 582 152 HOH HOH . D 4 HOH A 183 583 218 HOH HOH . D 4 HOH A 184 584 63 HOH HOH . D 4 HOH A 185 585 178 HOH HOH . D 4 HOH A 186 586 160 HOH HOH . D 4 HOH A 187 587 53 HOH HOH . D 4 HOH A 188 588 124 HOH HOH . D 4 HOH A 189 589 197 HOH HOH . D 4 HOH A 190 590 80 HOH HOH . D 4 HOH A 191 591 211 HOH HOH . D 4 HOH A 192 592 198 HOH HOH . D 4 HOH A 193 593 151 HOH HOH . D 4 HOH A 194 594 193 HOH HOH . D 4 HOH A 195 595 141 HOH HOH . D 4 HOH A 196 596 56 HOH HOH . D 4 HOH A 197 597 70 HOH HOH . D 4 HOH A 198 598 194 HOH HOH . D 4 HOH A 199 599 74 HOH HOH . D 4 HOH A 200 600 78 HOH HOH . D 4 HOH A 201 601 179 HOH HOH . D 4 HOH A 202 602 195 HOH HOH . D 4 HOH A 203 603 57 HOH HOH . D 4 HOH A 204 604 217 HOH HOH . D 4 HOH A 205 605 199 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 N ZXN . . . B 2 26.446 -0.557 17.091 1 24.76 ? N ZXN 301 A 1 HETATM 2 C C6 ZXN . . . B 2 26.244 4.057 15.806 1 19.15 ? C6 ZXN 301 A 1 HETATM 3 C C5 ZXN . . . B 2 25.878 2.754 15.594 1 19.21 ? C5 ZXN 301 A 1 HETATM 4 C C4 ZXN . . . B 2 26.504 1.739 16.345 1 20.23 ? C4 ZXN 301 A 1 HETATM 5 C C3 ZXN . . . B 2 27.487 2.127 17.268 1 21 ? C3 ZXN 301 A 1 HETATM 6 C C2 ZXN . . . B 2 27.802 3.489 17.429 1 18.87 ? C2 ZXN 301 A 1 HETATM 7 N N1 ZXN . . . B 2 27.195 4.414 16.69 1 19.92 ? N1 ZXN 301 A 1 HETATM 8 C C2A ZXN . . . B 2 28.843 3.934 18.408 1 19.4 ? C2A ZXN 301 A 1 HETATM 9 O O3 ZXN . . . B 2 28.156 1.21 18.018 1 23.44 ? O3 ZXN 301 A 1 HETATM 10 C C4A ZXN . . . B 2 26.149 0.322 16.193 1 22.49 ? C4A ZXN 301 A 1 HETATM 11 C C5A ZXN . . . B 2 24.866 2.447 14.542 1 16.6 ? C5A ZXN 301 A 1 HETATM 12 O O4P ZXN . . . B 2 25.56 1.809 13.425 1 15.91 ? O4P ZXN 301 A 1 HETATM 13 P P ZXN . . . B 2 24.738 0.859 12.386 1 16.44 ? P ZXN 301 A 1 HETATM 14 O O1P ZXN . . . B 2 25.785 0.526 11.365 1 14.13 -1 O1P ZXN 301 A 1 HETATM 15 O O2P ZXN . . . B 2 24.184 -0.31 13.221 1 14.54 ? O2P ZXN 301 A 1 HETATM 16 O O3P ZXN . . . B 2 23.523 1.674 11.825 1 15.73 -1 O3P ZXN 301 A 1 HETATM 17 N N' ZXN . . . B 2 25.894 -1.817 16.989 1 28.2 ? N' ZXN 301 A 1 HETATM 18 C CG ZXN . . . B 2 25.974 -2.728 18.071 1 33.11 ? CG ZXN 301 A 1 HETATM 19 C CD2 ZXN . . . B 2 25.193 -3.884 18.073 1 34.58 ? CD2 ZXN 301 A 1 HETATM 20 C CE2 ZXN . . . B 2 25.272 -4.767 19.149 1 33.74 ? CE2 ZXN 301 A 1 HETATM 21 C CZ ZXN . . . B 2 26.117 -4.516 20.219 1 33.17 ? CZ ZXN 301 A 1 HETATM 22 C CE1 ZXN . . . B 2 26.88 -3.364 20.228 1 35.64 ? CE1 ZXN 301 A 1 HETATM 23 C CD1 ZXN . . . B 2 26.813 -2.469 19.163 1 31.36 ? CD1 ZXN 301 A 1 # _model_server_stats.io_time_ms 39 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 235 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 23 #