data_1AMR # _model_server_result.job_id '_C-jmQZ6BBf8WlM5IPljPg' _model_server_result.datetime_utc '2024-11-07 16:30:37' _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 1amr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":413}' # _entry.id 1AMR # _exptl.entry_id 1AMR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 248.173 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-DEOXY-4'-AMINOPYRIDOXAL-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 1AMR _cell.length_a 157.6 _cell.length_b 85.7 _cell.length_c 78.9 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AMR _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _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,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' 4_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 'C8 H13 N2 O5 P' _chem_comp.formula_weight 248.173 _chem_comp.id PMP _chem_comp.mon_nstd_flag . _chem_comp.name "4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "PYRIDOXAMINE-5'-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 PMP doub 271 n y N1 C6 PMP sing 272 n y C2 C2A PMP sing 273 n n C2 C3 PMP sing 274 n y C2A H2A1 PMP sing 275 n n C2A H2A2 PMP sing 276 n n C2A H2A3 PMP sing 277 n n C3 O3 PMP sing 278 n n C3 C4 PMP doub 279 n y O3 HO3 PMP sing 280 n n C4 C4A PMP sing 281 n n C4 C5 PMP sing 282 n y C4A N4A PMP sing 283 n n C4A H4A1 PMP sing 284 n n C4A H4A2 PMP sing 285 n n N4A HNA1 PMP sing 286 n n N4A HNA2 PMP sing 287 n n C5 C6 PMP doub 288 n y C5 C5A PMP sing 289 n n C6 H6 PMP sing 290 n n C5A O4P PMP sing 291 n n C5A H5A1 PMP sing 292 n n C5A H5A2 PMP sing 293 n n O4P P PMP sing 294 n n P O1P PMP doub 295 n n P O2P PMP sing 296 n n P O3P PMP sing 297 n n O2P HOP2 PMP sing 298 n n O3P HOP3 PMP sing 299 n n # _atom_sites.entry_id 1AMR _atom_sites.fract_transf_matrix[1][1] 0.006345 _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] 0.011669 _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] 0.012674 _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 PMP A 1 413 413 PMP PMP . C 3 MAE A 1 414 414 MAE MAE . D 4 HOH A 1 420 420 HOH HOH . D 4 HOH A 2 421 421 HOH HOH . D 4 HOH A 3 422 422 HOH HOH . D 4 HOH A 4 423 423 HOH HOH . D 4 HOH A 5 424 424 HOH HOH . D 4 HOH A 6 425 425 HOH HOH . D 4 HOH A 7 426 426 HOH HOH . D 4 HOH A 8 427 427 HOH HOH . D 4 HOH A 9 428 428 HOH HOH . D 4 HOH A 10 429 429 HOH HOH . D 4 HOH A 11 430 430 HOH HOH . D 4 HOH A 12 431 431 HOH HOH . D 4 HOH A 13 432 432 HOH HOH . D 4 HOH A 14 433 433 HOH HOH . D 4 HOH A 15 434 434 HOH HOH . D 4 HOH A 16 435 435 HOH HOH . D 4 HOH A 17 436 436 HOH HOH . D 4 HOH A 18 437 437 HOH HOH . D 4 HOH A 19 438 438 HOH HOH . D 4 HOH A 20 439 439 HOH HOH . D 4 HOH A 21 440 440 HOH HOH . D 4 HOH A 22 441 441 HOH HOH . D 4 HOH A 23 442 442 HOH HOH . D 4 HOH A 24 443 443 HOH HOH . D 4 HOH A 25 444 444 HOH HOH . D 4 HOH A 26 445 445 HOH HOH . D 4 HOH A 27 446 446 HOH HOH . D 4 HOH A 28 447 447 HOH HOH . D 4 HOH A 29 448 448 HOH HOH . D 4 HOH A 30 449 449 HOH HOH . D 4 HOH A 31 450 450 HOH HOH . D 4 HOH A 32 451 451 HOH HOH . D 4 HOH A 33 452 452 HOH HOH . D 4 HOH A 34 453 453 HOH HOH . D 4 HOH A 35 454 454 HOH HOH . D 4 HOH A 36 455 455 HOH HOH . D 4 HOH A 37 456 456 HOH HOH . D 4 HOH A 38 457 457 HOH HOH . D 4 HOH A 39 458 458 HOH HOH . D 4 HOH A 40 459 459 HOH HOH . D 4 HOH A 41 460 460 HOH HOH . D 4 HOH A 42 461 461 HOH HOH . D 4 HOH A 43 462 462 HOH HOH . D 4 HOH A 44 463 463 HOH HOH . D 4 HOH A 45 464 464 HOH HOH . D 4 HOH A 46 465 465 HOH HOH . D 4 HOH A 47 466 466 HOH HOH . D 4 HOH A 48 467 467 HOH HOH . D 4 HOH A 49 468 468 HOH HOH . D 4 HOH A 50 469 469 HOH HOH . D 4 HOH A 51 470 470 HOH HOH . D 4 HOH A 52 471 471 HOH HOH . D 4 HOH A 53 472 472 HOH HOH . D 4 HOH A 54 473 473 HOH HOH . D 4 HOH A 55 474 474 HOH HOH . D 4 HOH A 56 475 475 HOH HOH . D 4 HOH A 57 476 476 HOH HOH . D 4 HOH A 58 477 477 HOH HOH . D 4 HOH A 59 478 478 HOH HOH . D 4 HOH A 60 479 479 HOH HOH . D 4 HOH A 61 480 480 HOH HOH . D 4 HOH A 62 481 481 HOH HOH . D 4 HOH A 63 482 482 HOH HOH . D 4 HOH A 64 483 483 HOH HOH . D 4 HOH A 65 484 484 HOH HOH . D 4 HOH A 66 485 485 HOH HOH . D 4 HOH A 67 486 486 HOH HOH . D 4 HOH A 68 487 487 HOH HOH . D 4 HOH A 69 488 488 HOH HOH . D 4 HOH A 70 489 489 HOH HOH . D 4 HOH A 71 490 490 HOH HOH . D 4 HOH A 72 491 491 HOH HOH . D 4 HOH A 73 492 492 HOH HOH . D 4 HOH A 74 493 493 HOH HOH . D 4 HOH A 75 494 494 HOH HOH . D 4 HOH A 76 495 495 HOH HOH . D 4 HOH A 77 496 496 HOH HOH . D 4 HOH A 78 497 497 HOH HOH . D 4 HOH A 79 498 498 HOH HOH . D 4 HOH A 80 499 499 HOH HOH . D 4 HOH A 81 500 500 HOH HOH . D 4 HOH A 82 501 501 HOH HOH . D 4 HOH A 83 502 502 HOH HOH . D 4 HOH A 84 503 503 HOH HOH . D 4 HOH A 85 504 504 HOH HOH . D 4 HOH A 86 505 505 HOH HOH . D 4 HOH A 87 506 506 HOH HOH . D 4 HOH A 88 507 507 HOH HOH . D 4 HOH A 89 508 508 HOH HOH . D 4 HOH A 90 509 509 HOH HOH . D 4 HOH A 91 510 510 HOH HOH . D 4 HOH A 92 511 511 HOH HOH . D 4 HOH A 93 512 512 HOH HOH . D 4 HOH A 94 513 513 HOH HOH . D 4 HOH A 95 514 514 HOH HOH . D 4 HOH A 96 515 515 HOH HOH . D 4 HOH A 97 516 516 HOH HOH . D 4 HOH A 98 517 517 HOH HOH . D 4 HOH A 99 518 518 HOH HOH . D 4 HOH A 100 519 519 HOH HOH . D 4 HOH A 101 520 520 HOH HOH . D 4 HOH A 102 521 521 HOH HOH . D 4 HOH A 103 522 522 HOH HOH . D 4 HOH A 104 523 523 HOH HOH . D 4 HOH A 105 524 524 HOH HOH . D 4 HOH A 106 525 525 HOH HOH . D 4 HOH A 107 526 526 HOH HOH . D 4 HOH A 108 527 527 HOH HOH . D 4 HOH A 109 528 528 HOH HOH . D 4 HOH A 110 529 529 HOH HOH . D 4 HOH A 111 530 530 HOH HOH . D 4 HOH A 112 531 531 HOH HOH . D 4 HOH A 113 532 532 HOH HOH . D 4 HOH A 114 533 533 HOH HOH . D 4 HOH A 115 534 534 HOH HOH . D 4 HOH A 116 535 535 HOH HOH . D 4 HOH A 117 536 536 HOH HOH . D 4 HOH A 118 537 537 HOH HOH . D 4 HOH A 119 538 538 HOH HOH . D 4 HOH A 120 539 539 HOH HOH . D 4 HOH A 121 540 540 HOH HOH . D 4 HOH A 122 541 541 HOH HOH . D 4 HOH A 123 542 542 HOH HOH . D 4 HOH A 124 543 543 HOH HOH . D 4 HOH A 125 544 544 HOH HOH . D 4 HOH A 126 545 545 HOH HOH . D 4 HOH A 127 546 546 HOH HOH . D 4 HOH A 128 547 547 HOH HOH . D 4 HOH A 129 548 548 HOH HOH . D 4 HOH A 130 549 549 HOH HOH . D 4 HOH A 131 550 550 HOH HOH . D 4 HOH A 132 551 551 HOH HOH . D 4 HOH A 133 552 552 HOH HOH . D 4 HOH A 134 553 553 HOH HOH . D 4 HOH A 135 554 554 HOH HOH . D 4 HOH A 136 555 555 HOH HOH . D 4 HOH A 137 556 556 HOH HOH . D 4 HOH A 138 557 557 HOH HOH . D 4 HOH A 139 558 558 HOH HOH . D 4 HOH A 140 559 559 HOH HOH . D 4 HOH A 141 560 560 HOH HOH . D 4 HOH A 142 561 561 HOH HOH . D 4 HOH A 143 562 562 HOH HOH . D 4 HOH A 144 563 563 HOH HOH . D 4 HOH A 145 564 564 HOH HOH . D 4 HOH A 146 565 565 HOH HOH . D 4 HOH A 147 566 566 HOH HOH . D 4 HOH A 148 567 567 HOH HOH . D 4 HOH A 149 568 568 HOH HOH . D 4 HOH A 150 569 569 HOH HOH . D 4 HOH A 151 570 570 HOH HOH . D 4 HOH A 152 571 571 HOH HOH . D 4 HOH A 153 572 572 HOH HOH . D 4 HOH A 154 573 573 HOH HOH . D 4 HOH A 155 574 574 HOH HOH . D 4 HOH A 156 575 575 HOH HOH . D 4 HOH A 157 576 576 HOH HOH . D 4 HOH A 158 577 577 HOH HOH . D 4 HOH A 159 578 578 HOH HOH . D 4 HOH A 160 579 579 HOH HOH . D 4 HOH A 161 580 580 HOH HOH . D 4 HOH A 162 581 581 HOH HOH . D 4 HOH A 163 582 582 HOH HOH . D 4 HOH A 164 583 583 HOH HOH . D 4 HOH A 165 584 584 HOH HOH . D 4 HOH A 166 585 585 HOH HOH . D 4 HOH A 167 586 586 HOH HOH . D 4 HOH A 168 587 587 HOH HOH . D 4 HOH A 169 588 588 HOH HOH . D 4 HOH A 170 589 589 HOH HOH . D 4 HOH A 171 590 590 HOH HOH . D 4 HOH A 172 591 591 HOH HOH . D 4 HOH A 173 592 592 HOH HOH . D 4 HOH A 174 593 593 HOH HOH . D 4 HOH A 175 594 594 HOH HOH . D 4 HOH A 176 595 595 HOH HOH . D 4 HOH A 177 596 596 HOH HOH . D 4 HOH A 178 597 597 HOH HOH . D 4 HOH A 179 598 598 HOH HOH . D 4 HOH A 180 599 599 HOH HOH . D 4 HOH A 181 600 600 HOH HOH . D 4 HOH A 182 601 601 HOH HOH . D 4 HOH A 183 602 602 HOH HOH . D 4 HOH A 184 603 603 HOH HOH . D 4 HOH A 185 604 604 HOH HOH . D 4 HOH A 186 605 605 HOH HOH . D 4 HOH A 187 606 606 HOH HOH . D 4 HOH A 188 607 607 HOH HOH . D 4 HOH A 189 608 608 HOH HOH . D 4 HOH A 190 609 609 HOH HOH . D 4 HOH A 191 610 610 HOH HOH . D 4 HOH A 192 611 611 HOH HOH . D 4 HOH A 193 612 612 HOH HOH . D 4 HOH A 194 613 613 HOH HOH . D 4 HOH A 195 614 614 HOH HOH . D 4 HOH A 196 615 615 HOH HOH . D 4 HOH A 197 616 616 HOH HOH . D 4 HOH A 198 617 617 HOH HOH . D 4 HOH A 199 618 618 HOH HOH . D 4 HOH A 200 619 619 HOH HOH . D 4 HOH A 201 620 620 HOH HOH . D 4 HOH A 202 621 621 HOH HOH . D 4 HOH A 203 622 622 HOH HOH . D 4 HOH A 204 623 623 HOH HOH . D 4 HOH A 205 624 624 HOH HOH . D 4 HOH A 206 625 625 HOH HOH . D 4 HOH A 207 626 626 HOH HOH . D 4 HOH A 208 627 627 HOH HOH . D 4 HOH A 209 628 628 HOH HOH . D 4 HOH A 210 629 629 HOH HOH . D 4 HOH A 211 630 630 HOH HOH . D 4 HOH A 212 631 631 HOH HOH . D 4 HOH A 213 632 632 HOH HOH . D 4 HOH A 214 633 633 HOH HOH . D 4 HOH A 215 634 634 HOH HOH . D 4 HOH A 216 635 635 HOH HOH . D 4 HOH A 217 636 636 HOH HOH . D 4 HOH A 218 637 637 HOH HOH . D 4 HOH A 219 638 638 HOH HOH . D 4 HOH A 220 639 639 HOH HOH . D 4 HOH A 221 640 640 HOH HOH . D 4 HOH A 222 641 641 HOH HOH . D 4 HOH A 223 642 642 HOH HOH . D 4 HOH A 224 643 643 HOH HOH . D 4 HOH A 225 644 644 HOH HOH . D 4 HOH A 226 645 645 HOH HOH . D 4 HOH A 227 646 646 HOH HOH . D 4 HOH A 228 647 647 HOH HOH . D 4 HOH A 229 648 648 HOH HOH . D 4 HOH A 230 649 649 HOH HOH . D 4 HOH A 231 650 650 HOH HOH . D 4 HOH A 232 651 651 HOH HOH . D 4 HOH A 233 652 652 HOH HOH . D 4 HOH A 234 653 653 HOH HOH . D 4 HOH A 235 654 654 HOH HOH . D 4 HOH A 236 655 655 HOH HOH . D 4 HOH A 237 656 656 HOH HOH . D 4 HOH A 238 657 657 HOH HOH . D 4 HOH A 239 658 658 HOH HOH . D 4 HOH A 240 659 659 HOH HOH . D 4 HOH A 241 660 660 HOH HOH . D 4 HOH A 242 661 661 HOH HOH . D 4 HOH A 243 662 662 HOH HOH . D 4 HOH A 244 663 663 HOH HOH . D 4 HOH A 245 664 664 HOH HOH . D 4 HOH A 246 665 665 HOH HOH . D 4 HOH A 247 666 666 HOH HOH . D 4 HOH A 248 667 667 HOH HOH . D 4 HOH A 249 668 668 HOH HOH . D 4 HOH A 250 669 669 HOH HOH . D 4 HOH A 251 670 670 HOH HOH . D 4 HOH A 252 671 671 HOH HOH . D 4 HOH A 253 672 672 HOH HOH . D 4 HOH A 254 673 673 HOH HOH . D 4 HOH A 255 674 674 HOH HOH . D 4 HOH A 256 675 675 HOH HOH . D 4 HOH A 257 676 676 HOH HOH . D 4 HOH A 258 677 677 HOH HOH . D 4 HOH A 259 678 678 HOH HOH . D 4 HOH A 260 679 679 HOH HOH . D 4 HOH A 261 680 680 HOH HOH . D 4 HOH A 262 681 681 HOH HOH . D 4 HOH A 263 682 682 HOH HOH . D 4 HOH A 264 683 683 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 PMP . . . B 2 26.803 3.527 -14.924 1 18.5 ? N1 PMP 413 A 1 HETATM 2 C C2 PMP . . . B 2 26.458 4.533 -15.78 1 18.97 ? C2 PMP 413 A 1 HETATM 3 C C2A PMP . . . B 2 27.118 4.649 -17.168 1 16.53 ? C2A PMP 413 A 1 HETATM 4 C C3 PMP . . . B 2 25.549 5.464 -15.376 1 19.53 ? C3 PMP 413 A 1 HETATM 5 O O3 PMP . . . B 2 25.144 6.46 -16.224 1 20.48 ? O3 PMP 413 A 1 HETATM 6 C C4 PMP . . . B 2 25.01 5.402 -14.11 1 21.81 ? C4 PMP 413 A 1 HETATM 7 C C4A PMP . . . B 2 24.169 6.544 -13.634 1 24.68 ? C4A PMP 413 A 1 HETATM 8 N N4A PMP . . . B 2 23.406 6.928 -14.713 1 26.55 ? N4A PMP 413 A 1 HETATM 9 C C5 PMP . . . B 2 25.365 4.375 -13.247 1 19.91 ? C5 PMP 413 A 1 HETATM 10 C C6 PMP . . . B 2 26.252 3.437 -13.672 1 18.31 ? C6 PMP 413 A 1 HETATM 11 C C5A PMP . . . B 2 24.93 4.392 -11.765 1 18.13 ? C5A PMP 413 A 1 HETATM 12 O O4P PMP . . . B 2 23.569 4.089 -11.651 1 10.34 ? O4P PMP 413 A 1 HETATM 13 P P PMP . . . B 2 22.827 3.879 -10.287 1 9.97 ? P PMP 413 A 1 HETATM 14 O O1P PMP . . . B 2 23.635 3.667 -9.102 1 7.58 ? O1P PMP 413 A 1 HETATM 15 O O2P PMP . . . B 2 21.936 2.777 -10.646 1 12.21 ? O2P PMP 413 A 1 HETATM 16 O O3P PMP . . . B 2 22.145 5.282 -10.14 1 12.01 ? O3P PMP 413 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 16 #