data_9F69 # _model_server_result.job_id fMh7oLk5vhCoZ_N93A1DJg _model_server_result.datetime_utc '2025-07-04 18:34:31' _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 9f69 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 9F69 # _exptl.entry_id 9F69 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.088 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'METHYLMALONIC ACID' _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 120 _cell.entry_id 9F69 _cell.length_a 48.466 _cell.length_b 48.466 _cell.length_c 341.862 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9F69 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall 'P 61 2 (x,y,z+5/12)' _symmetry.space_group_name_H-M 'P 61 2 2' # _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 _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' 8_555 x-y,-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 'C4 H6 O4' _chem_comp.formula_weight 118.088 _chem_comp.id DXX _chem_comp.mon_nstd_flag . _chem_comp.name 'METHYLMALONIC ACID' _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 C1 O1 DXX sing 83 n n C1 OXT DXX doub 84 n n C1 CA DXX sing 85 n n O1 H1 DXX sing 86 n n CA CB DXX sing 87 n n CA C DXX sing 88 n n CA HA DXX sing 89 n n CB HB1 DXX sing 90 n n CB HB2 DXX sing 91 n n CB HB3 DXX sing 92 n n C O DXX doub 93 n n C O2 DXX sing 94 n n O2 HO2 DXX sing 95 n n # _atom_sites.entry_id 9F69 _atom_sites.fract_transf_matrix[1][1] 0.020633 _atom_sites.fract_transf_matrix[1][2] 0.011912 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023825 _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] 0.002925 _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 DXX A 1 301 302 DXX DXX . C 3 BR A 1 302 1 BR BR . D 4 HOH A 1 401 20 HOH HOH . D 4 HOH A 2 402 142 HOH HOH . D 4 HOH A 3 403 214 HOH HOH . D 4 HOH A 4 404 98 HOH HOH . D 4 HOH A 5 405 72 HOH HOH . D 4 HOH A 6 406 232 HOH HOH . D 4 HOH A 7 407 53 HOH HOH . D 4 HOH A 8 408 145 HOH HOH . D 4 HOH A 9 409 218 HOH HOH . D 4 HOH A 10 410 191 HOH HOH . D 4 HOH A 11 411 112 HOH HOH . D 4 HOH A 12 412 109 HOH HOH . D 4 HOH A 13 413 93 HOH HOH . D 4 HOH A 14 414 237 HOH HOH . D 4 HOH A 15 415 102 HOH HOH . D 4 HOH A 16 416 183 HOH HOH . D 4 HOH A 17 417 206 HOH HOH . D 4 HOH A 18 418 210 HOH HOH . D 4 HOH A 19 419 149 HOH HOH . D 4 HOH A 20 420 322 HOH HOH . D 4 HOH A 21 421 89 HOH HOH . D 4 HOH A 22 422 319 HOH HOH . D 4 HOH A 23 423 12 HOH HOH . D 4 HOH A 24 424 154 HOH HOH . D 4 HOH A 25 425 146 HOH HOH . D 4 HOH A 26 426 69 HOH HOH . D 4 HOH A 27 427 216 HOH HOH . D 4 HOH A 28 428 33 HOH HOH . D 4 HOH A 29 429 23 HOH HOH . D 4 HOH A 30 430 105 HOH HOH . D 4 HOH A 31 431 25 HOH HOH . D 4 HOH A 32 432 92 HOH HOH . D 4 HOH A 33 433 125 HOH HOH . D 4 HOH A 34 434 13 HOH HOH . D 4 HOH A 35 435 299 HOH HOH . D 4 HOH A 36 436 30 HOH HOH . D 4 HOH A 37 437 14 HOH HOH . D 4 HOH A 38 438 186 HOH HOH . D 4 HOH A 39 439 254 HOH HOH . D 4 HOH A 40 440 21 HOH HOH . D 4 HOH A 41 441 38 HOH HOH . D 4 HOH A 42 442 321 HOH HOH . D 4 HOH A 43 443 120 HOH HOH . D 4 HOH A 44 444 91 HOH HOH . D 4 HOH A 45 445 81 HOH HOH . D 4 HOH A 46 446 115 HOH HOH . D 4 HOH A 47 447 119 HOH HOH . D 4 HOH A 48 448 305 HOH HOH . D 4 HOH A 49 449 207 HOH HOH . D 4 HOH A 50 450 161 HOH HOH . D 4 HOH A 51 451 36 HOH HOH . D 4 HOH A 52 452 184 HOH HOH . D 4 HOH A 53 453 103 HOH HOH . D 4 HOH A 54 454 54 HOH HOH . D 4 HOH A 55 455 2 HOH HOH . D 4 HOH A 56 456 4 HOH HOH . D 4 HOH A 57 457 52 HOH HOH . D 4 HOH A 58 458 88 HOH HOH . D 4 HOH A 59 459 167 HOH HOH . D 4 HOH A 60 460 116 HOH HOH . D 4 HOH A 61 461 117 HOH HOH . D 4 HOH A 62 462 273 HOH HOH . D 4 HOH A 63 463 96 HOH HOH . D 4 HOH A 64 464 194 HOH HOH . D 4 HOH A 65 465 97 HOH HOH . D 4 HOH A 66 466 173 HOH HOH . D 4 HOH A 67 467 193 HOH HOH . D 4 HOH A 68 468 37 HOH HOH . D 4 HOH A 69 469 35 HOH HOH . D 4 HOH A 70 470 80 HOH HOH . D 4 HOH A 71 471 132 HOH HOH . D 4 HOH A 72 472 79 HOH HOH . D 4 HOH A 73 473 32 HOH HOH . D 4 HOH A 74 474 178 HOH HOH . D 4 HOH A 75 475 3 HOH HOH . D 4 HOH A 76 476 302 HOH HOH . D 4 HOH A 77 477 11 HOH HOH . D 4 HOH A 78 478 110 HOH HOH . D 4 HOH A 79 479 26 HOH HOH . D 4 HOH A 80 480 48 HOH HOH . D 4 HOH A 81 481 222 HOH HOH . D 4 HOH A 82 482 24 HOH HOH . D 4 HOH A 83 483 71 HOH HOH . D 4 HOH A 84 484 340 HOH HOH . D 4 HOH A 85 485 44 HOH HOH . D 4 HOH A 86 486 31 HOH HOH . D 4 HOH A 87 487 346 HOH HOH . D 4 HOH A 88 488 107 HOH HOH . D 4 HOH A 89 489 60 HOH HOH . D 4 HOH A 90 490 28 HOH HOH . D 4 HOH A 91 491 131 HOH HOH . D 4 HOH A 92 492 259 HOH HOH . D 4 HOH A 93 493 45 HOH HOH . D 4 HOH A 94 494 225 HOH HOH . D 4 HOH A 95 495 123 HOH HOH . D 4 HOH A 96 496 99 HOH HOH . D 4 HOH A 97 497 199 HOH HOH . D 4 HOH A 98 498 174 HOH HOH . D 4 HOH A 99 499 296 HOH HOH . D 4 HOH A 100 500 213 HOH HOH . D 4 HOH A 101 501 77 HOH HOH . D 4 HOH A 102 502 85 HOH HOH . D 4 HOH A 103 503 16 HOH HOH . D 4 HOH A 104 504 190 HOH HOH . D 4 HOH A 105 505 138 HOH HOH . D 4 HOH A 106 506 113 HOH HOH . D 4 HOH A 107 507 227 HOH HOH . D 4 HOH A 108 508 39 HOH HOH . D 4 HOH A 109 509 130 HOH HOH . D 4 HOH A 110 510 245 HOH HOH . D 4 HOH A 111 511 94 HOH HOH . D 4 HOH A 112 512 180 HOH HOH . D 4 HOH A 113 513 100 HOH HOH . D 4 HOH A 114 514 46 HOH HOH . D 4 HOH A 115 515 49 HOH HOH . D 4 HOH A 116 516 148 HOH HOH . D 4 HOH A 117 517 250 HOH HOH . D 4 HOH A 118 518 67 HOH HOH . D 4 HOH A 119 519 155 HOH HOH . D 4 HOH A 120 520 15 HOH HOH . D 4 HOH A 121 521 86 HOH HOH . D 4 HOH A 122 522 19 HOH HOH . D 4 HOH A 123 523 56 HOH HOH . D 4 HOH A 124 524 124 HOH HOH . D 4 HOH A 125 525 128 HOH HOH . D 4 HOH A 126 526 70 HOH HOH . D 4 HOH A 127 527 158 HOH HOH . D 4 HOH A 128 528 133 HOH HOH . D 4 HOH A 129 529 47 HOH HOH . D 4 HOH A 130 530 157 HOH HOH . D 4 HOH A 131 531 171 HOH HOH . D 4 HOH A 132 532 68 HOH HOH . D 4 HOH A 133 533 139 HOH HOH . D 4 HOH A 134 534 76 HOH HOH . D 4 HOH A 135 535 41 HOH HOH . D 4 HOH A 136 536 307 HOH HOH . D 4 HOH A 137 537 42 HOH HOH . D 4 HOH A 138 538 27 HOH HOH . D 4 HOH A 139 539 244 HOH HOH . D 4 HOH A 140 540 135 HOH HOH . D 4 HOH A 141 541 114 HOH HOH . D 4 HOH A 142 542 55 HOH HOH . D 4 HOH A 143 543 1 HOH HOH . D 4 HOH A 144 544 159 HOH HOH . D 4 HOH A 145 545 111 HOH HOH . D 4 HOH A 146 546 243 HOH HOH . D 4 HOH A 147 547 235 HOH HOH . D 4 HOH A 148 548 62 HOH HOH . D 4 HOH A 149 549 317 HOH HOH . D 4 HOH A 150 550 104 HOH HOH . D 4 HOH A 151 551 127 HOH HOH . D 4 HOH A 152 552 66 HOH HOH . D 4 HOH A 153 553 84 HOH HOH . D 4 HOH A 154 554 147 HOH HOH . D 4 HOH A 155 555 331 HOH HOH . D 4 HOH A 156 556 179 HOH HOH . D 4 HOH A 157 557 156 HOH HOH . D 4 HOH A 158 558 189 HOH HOH . D 4 HOH A 159 559 118 HOH HOH . D 4 HOH A 160 560 106 HOH HOH . D 4 HOH A 161 561 108 HOH HOH . D 4 HOH A 162 562 344 HOH HOH . D 4 HOH A 163 563 29 HOH HOH . D 4 HOH A 164 564 50 HOH HOH . D 4 HOH A 165 565 34 HOH HOH . D 4 HOH A 166 566 264 HOH HOH . D 4 HOH A 167 567 58 HOH HOH . D 4 HOH A 168 568 151 HOH HOH . D 4 HOH A 169 569 208 HOH HOH . D 4 HOH A 170 570 126 HOH HOH . D 4 HOH A 171 571 201 HOH HOH . D 4 HOH A 172 572 7 HOH HOH . D 4 HOH A 173 573 177 HOH HOH . D 4 HOH A 174 574 181 HOH HOH . D 4 HOH A 175 575 192 HOH HOH . D 4 HOH A 176 576 287 HOH HOH . D 4 HOH A 177 577 5 HOH HOH . D 4 HOH A 178 578 74 HOH HOH . D 4 HOH A 179 579 40 HOH HOH . D 4 HOH A 180 580 43 HOH HOH . D 4 HOH A 181 581 83 HOH HOH . D 4 HOH A 182 582 231 HOH HOH . D 4 HOH A 183 583 143 HOH HOH . D 4 HOH A 184 584 65 HOH HOH . D 4 HOH A 185 585 198 HOH HOH . D 4 HOH A 186 586 10 HOH HOH . D 4 HOH A 187 587 90 HOH HOH . D 4 HOH A 188 588 336 HOH HOH . D 4 HOH A 189 589 172 HOH HOH . D 4 HOH A 190 590 9 HOH HOH . D 4 HOH A 191 591 6 HOH HOH . D 4 HOH A 192 592 220 HOH HOH . D 4 HOH A 193 593 8 HOH HOH . D 4 HOH A 194 594 233 HOH HOH . D 4 HOH A 195 595 229 HOH HOH . D 4 HOH A 196 596 64 HOH HOH . D 4 HOH A 197 597 185 HOH HOH . D 4 HOH A 198 598 63 HOH HOH . D 4 HOH A 199 599 129 HOH HOH . D 4 HOH A 200 600 59 HOH HOH . D 4 HOH A 201 601 175 HOH HOH . D 4 HOH A 202 602 168 HOH HOH . D 4 HOH A 203 603 78 HOH HOH . D 4 HOH A 204 604 196 HOH HOH . D 4 HOH A 205 605 203 HOH HOH . D 4 HOH A 206 606 209 HOH HOH . D 4 HOH A 207 607 17 HOH HOH . D 4 HOH A 208 608 95 HOH HOH . D 4 HOH A 209 609 197 HOH HOH . D 4 HOH A 210 610 309 HOH HOH . D 4 HOH A 211 611 195 HOH HOH . D 4 HOH A 212 612 51 HOH HOH . D 4 HOH A 213 613 316 HOH HOH . D 4 HOH A 214 614 349 HOH HOH . D 4 HOH A 215 615 200 HOH HOH . D 4 HOH A 216 616 276 HOH HOH . D 4 HOH A 217 617 255 HOH HOH . D 4 HOH A 218 618 265 HOH HOH . D 4 HOH A 219 619 136 HOH HOH . D 4 HOH A 220 620 176 HOH HOH . D 4 HOH A 221 621 269 HOH HOH . D 4 HOH A 222 622 275 HOH HOH . D 4 HOH A 223 623 134 HOH HOH . D 4 HOH A 224 624 314 HOH HOH . D 4 HOH A 225 625 342 HOH HOH . D 4 HOH A 226 626 297 HOH HOH . D 4 HOH A 227 627 165 HOH HOH . D 4 HOH A 228 628 289 HOH HOH . D 4 HOH A 229 629 22 HOH HOH . D 4 HOH A 230 630 279 HOH HOH . D 4 HOH A 231 631 277 HOH HOH . D 4 HOH A 232 632 283 HOH HOH . D 4 HOH A 233 633 272 HOH HOH . D 4 HOH A 234 634 295 HOH HOH . D 4 HOH A 235 635 212 HOH HOH . D 4 HOH A 236 636 252 HOH HOH . D 4 HOH A 237 637 306 HOH HOH . D 4 HOH A 238 638 256 HOH HOH . D 4 HOH A 239 639 334 HOH HOH . D 4 HOH A 240 640 188 HOH HOH . D 4 HOH A 241 641 274 HOH HOH . D 4 HOH A 242 642 223 HOH HOH . D 4 HOH A 243 643 282 HOH HOH . D 4 HOH A 244 644 308 HOH HOH . D 4 HOH A 245 645 348 HOH HOH . D 4 HOH A 246 646 182 HOH HOH . D 4 HOH A 247 647 144 HOH HOH . D 4 HOH A 248 648 247 HOH HOH . D 4 HOH A 249 649 333 HOH HOH . D 4 HOH A 250 650 284 HOH HOH . D 4 HOH A 251 651 202 HOH HOH . D 4 HOH A 252 652 164 HOH HOH . D 4 HOH A 253 653 294 HOH HOH . D 4 HOH A 254 654 290 HOH HOH . D 4 HOH A 255 655 281 HOH HOH . D 4 HOH A 256 656 303 HOH HOH . D 4 HOH A 257 657 219 HOH HOH . D 4 HOH A 258 658 268 HOH HOH . D 4 HOH A 259 659 341 HOH HOH . D 4 HOH A 260 660 57 HOH HOH . D 4 HOH A 261 661 310 HOH HOH . D 4 HOH A 262 662 101 HOH HOH . D 4 HOH A 263 663 267 HOH HOH . D 4 HOH A 264 664 160 HOH HOH . D 4 HOH A 265 665 140 HOH HOH . D 4 HOH A 266 666 137 HOH HOH . D 4 HOH A 267 667 280 HOH HOH . D 4 HOH A 268 668 204 HOH HOH . D 4 HOH A 269 669 215 HOH HOH . D 4 HOH A 270 670 141 HOH HOH . D 4 HOH A 271 671 330 HOH HOH . D 4 HOH A 272 672 228 HOH HOH . D 4 HOH A 273 673 337 HOH HOH . D 4 HOH A 274 674 332 HOH HOH . D 4 HOH A 275 675 121 HOH HOH . D 4 HOH A 276 676 82 HOH HOH . D 4 HOH A 277 677 343 HOH HOH . D 4 HOH A 278 678 246 HOH HOH . D 4 HOH A 279 679 73 HOH HOH . D 4 HOH A 280 680 335 HOH HOH . D 4 HOH A 281 681 345 HOH HOH . D 4 HOH A 282 682 300 HOH HOH . D 4 HOH A 283 683 328 HOH HOH . D 4 HOH A 284 684 339 HOH HOH . D 4 HOH A 285 685 217 HOH HOH . D 4 HOH A 286 686 338 HOH HOH . D 4 HOH A 287 687 271 HOH HOH . D 4 HOH A 288 688 347 HOH HOH . D 4 HOH A 289 689 326 HOH HOH . D 4 HOH A 290 690 236 HOH HOH . D 4 HOH A 291 691 350 HOH HOH . D 4 HOH A 292 692 278 HOH HOH . D 4 HOH A 293 693 270 HOH HOH . D 4 HOH A 294 694 75 HOH HOH . D 4 HOH A 295 695 248 HOH HOH . D 4 HOH A 296 696 327 HOH HOH . D 4 HOH A 297 697 288 HOH HOH . D 4 HOH A 298 698 293 HOH HOH . D 4 HOH A 299 699 304 HOH HOH . D 4 HOH A 300 700 351 HOH HOH . D 4 HOH A 301 701 311 HOH HOH . D 4 HOH A 302 702 323 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 C C1 DXX . . . B 2 10.688 13.029 -3.11 1 50.72 ? C1 DXX 301 A 1 HETATM 2 O O1 DXX . . . B 2 11.931 13.185 -3.315 1 36.47 ? O1 DXX 301 A 1 HETATM 3 O OXT DXX . . . B 2 10.153 11.973 -2.703 1 38.73 ? OXT DXX 301 A 1 HETATM 4 C CA DXX . . . B 2 9.61 14.13 -3.329 1 49.37 ? CA DXX 301 A 1 HETATM 5 C CB DXX . . . B 2 8.709 14.174 -2.085 1 43.77 ? CB DXX 301 A 1 HETATM 6 C C DXX . . . B 2 8.67 14.069 -4.564 1 45.48 ? C DXX 301 A 1 HETATM 7 O O DXX . . . B 2 7.443 13.835 -4.438 1 36.71 ? O DXX 301 A 1 HETATM 8 O O2 DXX . . . B 2 9.249 14.269 -5.65 1 72.45 ? O2 DXX 301 A 1 HETATM 9 H HA DXX . . . B 2 10.092 14.971 -3.366 1 59.26 ? HA DXX 301 A 1 HETATM 10 H HB1 DXX . . . B 2 9.232 14.082 -1.273 1 52.53 ? HB1 DXX 301 A 1 HETATM 11 H HB2 DXX . . . B 2 8.057 13.457 -2.101 1 52.53 ? HB2 DXX 301 A 1 HETATM 12 H HB3 DXX . . . B 2 8.227 15.014 -2.034 1 52.53 ? HB3 DXX 301 A 1 # _model_server_stats.io_time_ms 117 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 12 #