data_1APV # _model_server_result.job_id c_4vGtUOQQMhdsqxuy9jSA _model_server_result.datetime_utc '2024-12-05 07:53:15' _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 1apv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":587}' # _entry.id 1APV # _exptl.entry_id 1APV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 73.094 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DIMETHYLFORMAMIDE _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 116.03 _cell.angle_gamma 90 _cell.entry_id 1APV _cell.length_a 97.52 _cell.length_b 46.57 _cell.length_c 66.23 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1APV _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 _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,F,G,H _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 249 E CYS 249 1_555 A SG CYS 283 E CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? covale ? covale1 A OG SER 3 E SER 3 1_555 C C1 MAN . E MAN 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A OG1 THR 7 E THR 7 1_555 D C1 XYS . E XYS 399 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale3 B N NME 5 I NME 1 1_555 B C DFO 4 I DFO 1 1_555 A ? ? ? ? ? ? ? ? ? ? ? 1.308 ? covale ? covale4 B N DFO 4 I DFO 1 1_555 B C VAL 3 I VAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale5 B N VAL 2 I VAL 3 1_555 B C IVA 1 I IVA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? # _chem_comp.formula 'C3 H7 N O' _chem_comp.formula_weight 73.094 _chem_comp.id DMF _chem_comp.mon_nstd_flag . _chem_comp.name DIMETHYLFORMAMIDE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1APV _atom_sites.fract_transf_matrix[1][1] 0.010254 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005008 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021473 _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] 0.016803 _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 MAN E 1 328 328 MAN MAN . D 4 XYS E 1 399 399 XYS XYS . E 5 SO4 E 1 365 365 SO4 SO4 . F 6 DMF I 1 587 587 DMF DMF . G 7 HOH E 1 329 329 HOH HOH . G 7 HOH E 2 330 330 HOH HOH . G 7 HOH E 3 331 331 HOH HOH . G 7 HOH E 4 332 332 HOH HOH . G 7 HOH E 5 333 333 HOH HOH . G 7 HOH E 6 334 334 HOH HOH . G 7 HOH E 7 335 335 HOH HOH . G 7 HOH E 8 336 336 HOH HOH . G 7 HOH E 9 337 337 HOH HOH . G 7 HOH E 10 339 339 HOH HOH . G 7 HOH E 11 340 340 HOH HOH . G 7 HOH E 12 341 341 HOH HOH . G 7 HOH E 13 342 342 HOH HOH . G 7 HOH E 14 343 343 HOH HOH . G 7 HOH E 15 344 344 HOH HOH . G 7 HOH E 16 345 345 HOH HOH . G 7 HOH E 17 346 346 HOH HOH . G 7 HOH E 18 347 347 HOH HOH . G 7 HOH E 19 348 348 HOH HOH . G 7 HOH E 20 349 349 HOH HOH . G 7 HOH E 21 350 350 HOH HOH . G 7 HOH E 22 351 351 HOH HOH . G 7 HOH E 23 352 352 HOH HOH . G 7 HOH E 24 353 353 HOH HOH . G 7 HOH E 25 354 354 HOH HOH . G 7 HOH E 26 355 355 HOH HOH . G 7 HOH E 27 356 356 HOH HOH . G 7 HOH E 28 357 357 HOH HOH . G 7 HOH E 29 358 358 HOH HOH . G 7 HOH E 30 359 359 HOH HOH . G 7 HOH E 31 360 360 HOH HOH . G 7 HOH E 32 361 361 HOH HOH . G 7 HOH E 33 362 362 HOH HOH . G 7 HOH E 34 363 363 HOH HOH . G 7 HOH E 35 364 364 HOH HOH . G 7 HOH E 36 366 366 HOH HOH . G 7 HOH E 37 367 367 HOH HOH . G 7 HOH E 38 368 368 HOH HOH . G 7 HOH E 39 369 369 HOH HOH . G 7 HOH E 40 370 370 HOH HOH . G 7 HOH E 41 371 371 HOH HOH . G 7 HOH E 42 372 372 HOH HOH . G 7 HOH E 43 373 373 HOH HOH . G 7 HOH E 44 374 374 HOH HOH . G 7 HOH E 45 376 376 HOH HOH . G 7 HOH E 46 377 377 HOH HOH . G 7 HOH E 47 378 378 HOH HOH . G 7 HOH E 48 379 379 HOH HOH . G 7 HOH E 49 380 380 HOH HOH . G 7 HOH E 50 381 381 HOH HOH . G 7 HOH E 51 382 382 HOH HOH . G 7 HOH E 52 383 383 HOH HOH . G 7 HOH E 53 384 384 HOH HOH . G 7 HOH E 54 385 385 HOH HOH . G 7 HOH E 55 386 386 HOH HOH . G 7 HOH E 56 387 387 HOH HOH . G 7 HOH E 57 388 388 HOH HOH . G 7 HOH E 58 389 389 HOH HOH . G 7 HOH E 59 390 390 HOH HOH . G 7 HOH E 60 391 391 HOH HOH . G 7 HOH E 61 392 392 HOH HOH . G 7 HOH E 62 393 393 HOH HOH . G 7 HOH E 63 394 394 HOH HOH . G 7 HOH E 64 395 395 HOH HOH . G 7 HOH E 65 396 396 HOH HOH . G 7 HOH E 66 397 397 HOH HOH . G 7 HOH E 67 398 398 HOH HOH . G 7 HOH E 68 400 400 HOH HOH . G 7 HOH E 69 401 401 HOH HOH . G 7 HOH E 70 402 402 HOH HOH . G 7 HOH E 71 403 403 HOH HOH . G 7 HOH E 72 404 404 HOH HOH . G 7 HOH E 73 405 405 HOH HOH . G 7 HOH E 74 406 406 HOH HOH . G 7 HOH E 75 407 407 HOH HOH . G 7 HOH E 76 408 408 HOH HOH . G 7 HOH E 77 409 409 HOH HOH . G 7 HOH E 78 410 410 HOH HOH . G 7 HOH E 79 411 411 HOH HOH . G 7 HOH E 80 412 412 HOH HOH . G 7 HOH E 81 413 413 HOH HOH . G 7 HOH E 82 414 414 HOH HOH . G 7 HOH E 83 415 415 HOH HOH . G 7 HOH E 84 416 416 HOH HOH . G 7 HOH E 85 417 417 HOH HOH . G 7 HOH E 86 418 418 HOH HOH . G 7 HOH E 87 419 419 HOH HOH . G 7 HOH E 88 420 420 HOH HOH . G 7 HOH E 89 421 421 HOH HOH . G 7 HOH E 90 422 422 HOH HOH . G 7 HOH E 91 423 423 HOH HOH . G 7 HOH E 92 424 424 HOH HOH . G 7 HOH E 93 425 425 HOH HOH . G 7 HOH E 94 426 426 HOH HOH . G 7 HOH E 95 427 427 HOH HOH . G 7 HOH E 96 428 428 HOH HOH . G 7 HOH E 97 429 429 HOH HOH . G 7 HOH E 98 430 430 HOH HOH . G 7 HOH E 99 431 431 HOH HOH . G 7 HOH E 100 432 432 HOH HOH . G 7 HOH E 101 433 433 HOH HOH . G 7 HOH E 102 434 434 HOH HOH . G 7 HOH E 103 435 435 HOH HOH . G 7 HOH E 104 437 437 HOH HOH . G 7 HOH E 105 438 438 HOH HOH . G 7 HOH E 106 439 439 HOH HOH . G 7 HOH E 107 440 440 HOH HOH . G 7 HOH E 108 441 441 HOH HOH . G 7 HOH E 109 442 442 HOH HOH . G 7 HOH E 110 443 443 HOH HOH . G 7 HOH E 111 444 444 HOH HOH . G 7 HOH E 112 445 445 HOH HOH . G 7 HOH E 113 446 446 HOH HOH . G 7 HOH E 114 447 447 HOH HOH . G 7 HOH E 115 448 448 HOH HOH . G 7 HOH E 116 450 450 HOH HOH . G 7 HOH E 117 451 451 HOH HOH . G 7 HOH E 118 452 452 HOH HOH . G 7 HOH E 119 453 453 HOH HOH . G 7 HOH E 120 454 454 HOH HOH . G 7 HOH E 121 455 455 HOH HOH . G 7 HOH E 122 456 456 HOH HOH . G 7 HOH E 123 457 457 HOH HOH . G 7 HOH E 124 458 458 HOH HOH . G 7 HOH E 125 459 459 HOH HOH . G 7 HOH E 126 460 460 HOH HOH . G 7 HOH E 127 461 461 HOH HOH . G 7 HOH E 128 462 462 HOH HOH . G 7 HOH E 129 463 463 HOH HOH . G 7 HOH E 130 464 464 HOH HOH . G 7 HOH E 131 465 465 HOH HOH . G 7 HOH E 132 466 466 HOH HOH . G 7 HOH E 133 467 467 HOH HOH . G 7 HOH E 134 468 468 HOH HOH . G 7 HOH E 135 469 469 HOH HOH . G 7 HOH E 136 470 470 HOH HOH . G 7 HOH E 137 471 471 HOH HOH . G 7 HOH E 138 472 472 HOH HOH . G 7 HOH E 139 473 473 HOH HOH . G 7 HOH E 140 474 474 HOH HOH . G 7 HOH E 141 475 475 HOH HOH . G 7 HOH E 142 476 476 HOH HOH . G 7 HOH E 143 477 477 HOH HOH . G 7 HOH E 144 478 478 HOH HOH . G 7 HOH E 145 479 479 HOH HOH . G 7 HOH E 146 480 480 HOH HOH . G 7 HOH E 147 482 482 HOH HOH . G 7 HOH E 148 483 483 HOH HOH . G 7 HOH E 149 484 484 HOH HOH . G 7 HOH E 150 485 485 HOH HOH . G 7 HOH E 151 486 486 HOH HOH . G 7 HOH E 152 487 487 HOH HOH . G 7 HOH E 153 488 488 HOH HOH . G 7 HOH E 154 489 489 HOH HOH . G 7 HOH E 155 490 490 HOH HOH . G 7 HOH E 156 491 491 HOH HOH . G 7 HOH E 157 492 492 HOH HOH . G 7 HOH E 158 493 493 HOH HOH . G 7 HOH E 159 494 494 HOH HOH . G 7 HOH E 160 495 495 HOH HOH . G 7 HOH E 161 496 496 HOH HOH . G 7 HOH E 162 497 497 HOH HOH . G 7 HOH E 163 498 498 HOH HOH . G 7 HOH E 164 499 499 HOH HOH . G 7 HOH E 165 501 501 HOH HOH . G 7 HOH E 166 504 504 HOH HOH . G 7 HOH E 167 505 505 HOH HOH . G 7 HOH E 168 506 506 HOH HOH . G 7 HOH E 169 507 507 HOH HOH . G 7 HOH E 170 509 509 HOH HOH . G 7 HOH E 171 510 510 HOH HOH . G 7 HOH E 172 511 511 HOH HOH . G 7 HOH E 173 512 512 HOH HOH . G 7 HOH E 174 514 514 HOH HOH . G 7 HOH E 175 515 515 HOH HOH . G 7 HOH E 176 516 516 HOH HOH . G 7 HOH E 177 517 517 HOH HOH . G 7 HOH E 178 518 518 HOH HOH . G 7 HOH E 179 519 519 HOH HOH . G 7 HOH E 180 520 520 HOH HOH . G 7 HOH E 181 521 521 HOH HOH . G 7 HOH E 182 522 522 HOH HOH . G 7 HOH E 183 523 523 HOH HOH . G 7 HOH E 184 524 524 HOH HOH . G 7 HOH E 185 525 525 HOH HOH . G 7 HOH E 186 526 526 HOH HOH . G 7 HOH E 187 527 527 HOH HOH . G 7 HOH E 188 528 528 HOH HOH . G 7 HOH E 189 529 529 HOH HOH . G 7 HOH E 190 530 530 HOH HOH . G 7 HOH E 191 531 531 HOH HOH . G 7 HOH E 192 532 532 HOH HOH . G 7 HOH E 193 533 533 HOH HOH . G 7 HOH E 194 534 534 HOH HOH . G 7 HOH E 195 535 535 HOH HOH . G 7 HOH E 196 536 536 HOH HOH . G 7 HOH E 197 537 537 HOH HOH . G 7 HOH E 198 539 539 HOH HOH . G 7 HOH E 199 540 540 HOH HOH . G 7 HOH E 200 541 541 HOH HOH . G 7 HOH E 201 542 542 HOH HOH . G 7 HOH E 202 543 543 HOH HOH . G 7 HOH E 203 544 544 HOH HOH . G 7 HOH E 204 545 545 HOH HOH . G 7 HOH E 205 547 547 HOH HOH . G 7 HOH E 206 549 549 HOH HOH . G 7 HOH E 207 550 550 HOH HOH . G 7 HOH E 208 551 551 HOH HOH . G 7 HOH E 209 552 552 HOH HOH . G 7 HOH E 210 556 556 HOH HOH . G 7 HOH E 211 557 557 HOH HOH . G 7 HOH E 212 558 558 HOH HOH . G 7 HOH E 213 560 560 HOH HOH . G 7 HOH E 214 561 561 HOH HOH . G 7 HOH E 215 562 562 HOH HOH . G 7 HOH E 216 563 563 HOH HOH . G 7 HOH E 217 565 565 HOH HOH . G 7 HOH E 218 566 566 HOH HOH . G 7 HOH E 219 567 567 HOH HOH . G 7 HOH E 220 569 569 HOH HOH . G 7 HOH E 221 570 570 HOH HOH . G 7 HOH E 222 571 571 HOH HOH . G 7 HOH E 223 572 572 HOH HOH . G 7 HOH E 224 573 573 HOH HOH . G 7 HOH E 225 575 575 HOH HOH . G 7 HOH E 226 576 576 HOH HOH . G 7 HOH E 227 577 577 HOH HOH . G 7 HOH E 228 578 578 HOH HOH . G 7 HOH E 229 579 579 HOH HOH . G 7 HOH E 230 580 580 HOH HOH . G 7 HOH E 231 581 581 HOH HOH . G 7 HOH E 232 582 582 HOH HOH . G 7 HOH E 233 583 583 HOH HOH . G 7 HOH E 234 584 584 HOH HOH . G 7 HOH E 235 586 586 HOH HOH . G 7 HOH E 236 588 588 HOH HOH . G 7 HOH E 237 589 589 HOH HOH . G 7 HOH E 238 590 590 HOH HOH . G 7 HOH E 239 591 591 HOH HOH . G 7 HOH E 240 592 592 HOH HOH . G 7 HOH E 241 593 593 HOH HOH . G 7 HOH E 242 594 594 HOH HOH . G 7 HOH E 243 595 595 HOH HOH . G 7 HOH E 244 596 596 HOH HOH . G 7 HOH E 245 597 597 HOH HOH . G 7 HOH E 246 598 598 HOH HOH . G 7 HOH E 247 599 599 HOH HOH . G 7 HOH E 248 600 600 HOH HOH . G 7 HOH E 249 601 601 HOH HOH . G 7 HOH E 250 602 602 HOH HOH . G 7 HOH E 251 603 603 HOH HOH . G 7 HOH E 252 604 604 HOH HOH . G 7 HOH E 253 606 606 HOH HOH . G 7 HOH E 254 607 607 HOH HOH . G 7 HOH E 255 608 608 HOH HOH . G 7 HOH E 256 609 609 HOH HOH . G 7 HOH E 257 611 611 HOH HOH . G 7 HOH E 258 612 612 HOH HOH . G 7 HOH E 259 613 613 HOH HOH . G 7 HOH E 260 614 614 HOH HOH . G 7 HOH E 261 615 615 HOH HOH . G 7 HOH E 262 616 616 HOH HOH . G 7 HOH E 263 617 617 HOH HOH . G 7 HOH E 264 618 618 HOH HOH . G 7 HOH E 265 619 619 HOH HOH . G 7 HOH E 266 620 620 HOH HOH . G 7 HOH E 267 621 621 HOH HOH . G 7 HOH E 268 622 622 HOH HOH . G 7 HOH E 269 623 623 HOH HOH . G 7 HOH E 270 624 624 HOH HOH . G 7 HOH E 271 625 625 HOH HOH . G 7 HOH E 272 626 626 HOH HOH . G 7 HOH E 273 627 627 HOH HOH . G 7 HOH E 274 628 628 HOH HOH . H 7 HOH I 1 338 338 HOH HOH . H 7 HOH I 2 375 375 HOH HOH . H 7 HOH I 3 436 436 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 DMF . . . F 6 21.386 13.964 26.08 0.7 26.93 ? C1 DMF 587 I 1 HETATM 2 C C2 DMF . . . F 6 22.744 12.274 27.306 0.7 26.77 ? C2 DMF 587 I 1 HETATM 3 C C DMF . . . F 6 20.391 12.228 27.396 0.7 28.28 ? C DMF 587 I 1 HETATM 4 O O DMF . . . F 6 20.48 11.608 28.473 0.7 29.19 ? O DMF 587 I 1 HETATM 5 N N DMF . . . F 6 21.494 12.758 26.841 0.7 24.96 ? N DMF 587 I 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 1039 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 5 #