data_3AVP # _model_server_result.job_id NsKfhM-WF0TUB6t76IDQQw _model_server_result.datetime_utc '2024-11-26 02:04:16' _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 3avp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":321}' # _entry.id 3AVP # _exptl.entry_id 3AVP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 11 _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 3AVP _cell.length_a 103.649 _cell.length_b 103.649 _cell.length_c 91.155 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3AVP _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 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,I,J,K,L,M,N,O,P,Q _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_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 91.155 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 F N N ? 5 G N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O N N ? 5 P N 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 metalc ? metalc1 A O ALA 157 A ALA 157 1_555 E NA NA . A NA 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.67 ? metalc ? metalc2 C OG1 FLC . A FLC 314 1_555 D NA NA . A NA 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc3 D NA NA . A NA 315 1_555 Q O HOH . A HOH 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc4 D NA NA . A NA 315 1_555 Q O HOH . A HOH 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? metalc ? metalc5 E NA NA . A NA 316 1_555 G O2 GOL . A GOL 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc6 E NA NA . A NA 316 1_555 Q O HOH . A HOH 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 146 n n C1 C2 GOL sing 147 n n C1 H11 GOL sing 148 n n C1 H12 GOL sing 149 n n O1 HO1 GOL sing 150 n n C2 O2 GOL sing 151 n n C2 C3 GOL sing 152 n n C2 H2 GOL sing 153 n n O2 HO2 GOL sing 154 n n C3 O3 GOL sing 155 n n C3 H31 GOL sing 156 n n C3 H32 GOL sing 157 n n O3 HO3 GOL sing 158 n n # _atom_sites.entry_id 3AVP _atom_sites.fract_transf_matrix[1][1] 0.009648 _atom_sites.fract_transf_matrix[1][2] 0.00557 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01114 _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] 0.01097 _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 MV2 A 1 313 313 MV2 MV2 . C 3 FLC A 1 314 314 FLC FLC . D 4 NA A 1 315 315 NA NA . E 4 NA A 1 316 316 NA NA . F 5 GOL A 1 317 317 GOL GOL . G 5 GOL A 1 318 318 GOL GOL . H 5 GOL A 1 319 319 GOL GOL . I 5 GOL A 1 320 320 GOL GOL . J 5 GOL A 1 321 321 GOL GOL . K 5 GOL A 1 322 322 GOL GOL . L 5 GOL A 1 323 323 GOL GOL . M 5 GOL A 1 324 324 GOL GOL . N 5 GOL A 1 325 325 GOL GOL . O 5 GOL A 1 326 326 GOL GOL . P 5 GOL A 1 327 327 GOL GOL . Q 6 HOH A 1 328 328 HOH HOH . Q 6 HOH A 2 329 329 HOH HOH . Q 6 HOH A 3 330 330 HOH HOH . Q 6 HOH A 4 331 331 HOH HOH . Q 6 HOH A 5 332 332 HOH HOH . Q 6 HOH A 6 333 333 HOH HOH . Q 6 HOH A 7 334 334 HOH HOH . Q 6 HOH A 8 335 335 HOH HOH . Q 6 HOH A 9 336 336 HOH HOH . Q 6 HOH A 10 337 337 HOH HOH . Q 6 HOH A 11 338 338 HOH HOH . Q 6 HOH A 12 339 339 HOH HOH . Q 6 HOH A 13 340 340 HOH HOH . Q 6 HOH A 14 341 341 HOH HOH . Q 6 HOH A 15 342 342 HOH HOH . Q 6 HOH A 16 343 343 HOH HOH . Q 6 HOH A 17 344 344 HOH HOH . Q 6 HOH A 18 345 345 HOH HOH . Q 6 HOH A 19 346 346 HOH HOH . Q 6 HOH A 20 347 347 HOH HOH . Q 6 HOH A 21 348 348 HOH HOH . Q 6 HOH A 22 349 349 HOH HOH . Q 6 HOH A 23 350 350 HOH HOH . Q 6 HOH A 24 351 351 HOH HOH . Q 6 HOH A 25 352 352 HOH HOH . Q 6 HOH A 26 353 353 HOH HOH . Q 6 HOH A 27 354 354 HOH HOH . Q 6 HOH A 28 355 355 HOH HOH . Q 6 HOH A 29 356 356 HOH HOH . Q 6 HOH A 30 357 357 HOH HOH . Q 6 HOH A 31 358 358 HOH HOH . Q 6 HOH A 32 359 359 HOH HOH . Q 6 HOH A 33 360 360 HOH HOH . Q 6 HOH A 34 361 361 HOH HOH . Q 6 HOH A 35 362 362 HOH HOH . Q 6 HOH A 36 363 363 HOH HOH . Q 6 HOH A 37 364 364 HOH HOH . Q 6 HOH A 38 365 365 HOH HOH . Q 6 HOH A 39 366 366 HOH HOH . Q 6 HOH A 40 367 367 HOH HOH . Q 6 HOH A 41 368 368 HOH HOH . Q 6 HOH A 42 369 369 HOH HOH . Q 6 HOH A 43 370 370 HOH HOH . Q 6 HOH A 44 371 371 HOH HOH . Q 6 HOH A 45 372 372 HOH HOH . Q 6 HOH A 46 373 373 HOH HOH . Q 6 HOH A 47 374 374 HOH HOH . Q 6 HOH A 48 375 375 HOH HOH . Q 6 HOH A 49 376 376 HOH HOH . Q 6 HOH A 50 377 377 HOH HOH . Q 6 HOH A 51 378 378 HOH HOH . Q 6 HOH A 52 379 379 HOH HOH . Q 6 HOH A 53 380 380 HOH HOH . Q 6 HOH A 54 381 381 HOH HOH . Q 6 HOH A 55 382 382 HOH HOH . Q 6 HOH A 56 383 383 HOH HOH . Q 6 HOH A 57 384 384 HOH HOH . Q 6 HOH A 58 385 385 HOH HOH . Q 6 HOH A 59 386 386 HOH HOH . Q 6 HOH A 60 387 387 HOH HOH . Q 6 HOH A 61 388 388 HOH HOH . Q 6 HOH A 62 389 389 HOH HOH . Q 6 HOH A 63 390 390 HOH HOH . Q 6 HOH A 64 391 391 HOH HOH . Q 6 HOH A 65 392 392 HOH HOH . Q 6 HOH A 66 393 393 HOH HOH . Q 6 HOH A 67 394 394 HOH HOH . Q 6 HOH A 68 395 395 HOH HOH . Q 6 HOH A 69 396 396 HOH HOH . Q 6 HOH A 70 397 397 HOH HOH . Q 6 HOH A 71 398 398 HOH HOH . Q 6 HOH A 72 399 399 HOH HOH . Q 6 HOH A 73 400 400 HOH HOH . Q 6 HOH A 74 401 401 HOH HOH . Q 6 HOH A 75 402 402 HOH HOH . Q 6 HOH A 76 403 403 HOH HOH . Q 6 HOH A 77 404 404 HOH HOH . Q 6 HOH A 78 405 405 HOH HOH . Q 6 HOH A 79 406 406 HOH HOH . Q 6 HOH A 80 407 407 HOH HOH . Q 6 HOH A 81 408 408 HOH HOH . Q 6 HOH A 82 409 409 HOH HOH . Q 6 HOH A 83 410 410 HOH HOH . Q 6 HOH A 84 411 411 HOH HOH . Q 6 HOH A 85 412 412 HOH HOH . Q 6 HOH A 86 413 413 HOH HOH . Q 6 HOH A 87 414 414 HOH HOH . Q 6 HOH A 88 415 415 HOH HOH . Q 6 HOH A 89 416 416 HOH HOH . Q 6 HOH A 90 417 417 HOH HOH . Q 6 HOH A 91 418 418 HOH HOH . Q 6 HOH A 92 419 419 HOH HOH . Q 6 HOH A 93 420 420 HOH HOH . Q 6 HOH A 94 421 421 HOH HOH . Q 6 HOH A 95 422 422 HOH HOH . Q 6 HOH A 96 423 423 HOH HOH . Q 6 HOH A 97 424 424 HOH HOH . Q 6 HOH A 98 425 425 HOH HOH . Q 6 HOH A 99 426 426 HOH HOH . Q 6 HOH A 100 427 427 HOH HOH . Q 6 HOH A 101 428 428 HOH HOH . Q 6 HOH A 102 429 429 HOH HOH . Q 6 HOH A 103 430 430 HOH HOH . Q 6 HOH A 104 431 431 HOH HOH . Q 6 HOH A 105 432 432 HOH HOH . Q 6 HOH A 106 433 433 HOH HOH . Q 6 HOH A 107 434 434 HOH HOH . Q 6 HOH A 108 435 435 HOH HOH . Q 6 HOH A 109 436 436 HOH HOH . Q 6 HOH A 110 437 437 HOH HOH . Q 6 HOH A 111 438 438 HOH HOH . Q 6 HOH A 112 439 439 HOH HOH . Q 6 HOH A 113 440 440 HOH HOH . Q 6 HOH A 114 441 441 HOH HOH . Q 6 HOH A 115 442 442 HOH HOH . Q 6 HOH A 116 443 443 HOH HOH . Q 6 HOH A 117 444 444 HOH HOH . Q 6 HOH A 118 445 445 HOH HOH . Q 6 HOH A 119 446 446 HOH HOH . Q 6 HOH A 120 447 447 HOH HOH . Q 6 HOH A 121 448 448 HOH HOH . Q 6 HOH A 122 449 449 HOH HOH . Q 6 HOH A 123 450 450 HOH HOH . Q 6 HOH A 124 451 451 HOH HOH . Q 6 HOH A 125 452 452 HOH HOH . Q 6 HOH A 126 453 453 HOH HOH . Q 6 HOH A 127 454 454 HOH HOH . Q 6 HOH A 128 455 455 HOH HOH . Q 6 HOH A 129 456 456 HOH HOH . Q 6 HOH A 130 457 457 HOH HOH . Q 6 HOH A 131 458 458 HOH HOH . Q 6 HOH A 132 459 459 HOH HOH . Q 6 HOH A 133 460 460 HOH HOH . Q 6 HOH A 134 461 461 HOH HOH . Q 6 HOH A 135 462 462 HOH HOH . Q 6 HOH A 136 463 463 HOH HOH . Q 6 HOH A 137 464 464 HOH HOH . Q 6 HOH A 138 465 465 HOH HOH . Q 6 HOH A 139 466 466 HOH HOH . Q 6 HOH A 140 467 467 HOH HOH . Q 6 HOH A 141 468 468 HOH HOH . Q 6 HOH A 142 469 469 HOH HOH . Q 6 HOH A 143 470 470 HOH HOH . Q 6 HOH A 144 471 471 HOH HOH . Q 6 HOH A 145 472 472 HOH HOH . Q 6 HOH A 146 473 473 HOH HOH . Q 6 HOH A 147 474 474 HOH HOH . Q 6 HOH A 148 475 475 HOH HOH . Q 6 HOH A 149 476 476 HOH HOH . Q 6 HOH A 150 477 477 HOH HOH . Q 6 HOH A 151 478 478 HOH HOH . Q 6 HOH A 152 479 479 HOH HOH . Q 6 HOH A 153 480 480 HOH HOH . Q 6 HOH A 154 481 481 HOH HOH . Q 6 HOH A 155 482 482 HOH HOH . Q 6 HOH A 156 483 483 HOH HOH . Q 6 HOH A 157 484 484 HOH HOH . Q 6 HOH A 158 485 485 HOH HOH . Q 6 HOH A 159 486 486 HOH HOH . Q 6 HOH A 160 487 487 HOH HOH . Q 6 HOH A 161 488 488 HOH HOH . Q 6 HOH A 162 489 489 HOH HOH . Q 6 HOH A 163 490 490 HOH HOH . Q 6 HOH A 164 491 491 HOH HOH . Q 6 HOH A 165 492 492 HOH HOH . Q 6 HOH A 166 493 493 HOH HOH . Q 6 HOH A 167 494 494 HOH HOH . Q 6 HOH A 168 495 495 HOH HOH . Q 6 HOH A 169 496 496 HOH HOH . Q 6 HOH A 170 497 497 HOH HOH . Q 6 HOH A 171 498 498 HOH HOH . Q 6 HOH A 172 499 499 HOH HOH . Q 6 HOH A 173 500 500 HOH HOH . Q 6 HOH A 174 501 501 HOH HOH . Q 6 HOH A 175 502 502 HOH HOH . Q 6 HOH A 176 503 503 HOH HOH . Q 6 HOH A 177 504 504 HOH HOH . Q 6 HOH A 178 505 505 HOH HOH . Q 6 HOH A 179 506 506 HOH HOH . Q 6 HOH A 180 507 507 HOH HOH . Q 6 HOH A 181 508 508 HOH HOH . Q 6 HOH A 182 509 509 HOH HOH . Q 6 HOH A 183 510 510 HOH HOH . Q 6 HOH A 184 511 511 HOH HOH . Q 6 HOH A 185 512 512 HOH HOH . Q 6 HOH A 186 513 513 HOH HOH . Q 6 HOH A 187 514 514 HOH HOH . Q 6 HOH A 188 515 515 HOH HOH . Q 6 HOH A 189 516 516 HOH HOH . Q 6 HOH A 190 517 517 HOH HOH . Q 6 HOH A 191 518 518 HOH HOH . Q 6 HOH A 192 519 519 HOH HOH . Q 6 HOH A 193 520 520 HOH HOH . Q 6 HOH A 194 521 521 HOH HOH . Q 6 HOH A 195 522 522 HOH HOH . Q 6 HOH A 196 523 523 HOH HOH . Q 6 HOH A 197 524 524 HOH HOH . Q 6 HOH A 198 525 525 HOH HOH . Q 6 HOH A 199 526 526 HOH HOH . Q 6 HOH A 200 527 527 HOH HOH . Q 6 HOH A 201 528 528 HOH HOH . Q 6 HOH A 202 529 529 HOH HOH . Q 6 HOH A 203 530 530 HOH HOH . Q 6 HOH A 204 531 531 HOH HOH . Q 6 HOH A 205 532 532 HOH HOH . Q 6 HOH A 206 533 533 HOH HOH . Q 6 HOH A 207 534 534 HOH HOH . Q 6 HOH A 208 535 535 HOH HOH . Q 6 HOH A 209 536 536 HOH HOH . Q 6 HOH A 210 537 537 HOH HOH . Q 6 HOH A 211 538 538 HOH HOH . Q 6 HOH A 212 539 539 HOH HOH . Q 6 HOH A 213 540 540 HOH HOH . Q 6 HOH A 214 541 541 HOH HOH . Q 6 HOH A 215 542 542 HOH HOH . Q 6 HOH A 216 543 543 HOH HOH . Q 6 HOH A 217 544 544 HOH HOH . Q 6 HOH A 218 545 545 HOH HOH . Q 6 HOH A 219 546 546 HOH HOH . Q 6 HOH A 220 547 547 HOH HOH . Q 6 HOH A 221 548 548 HOH HOH . Q 6 HOH A 222 549 549 HOH HOH . Q 6 HOH A 223 550 550 HOH HOH . Q 6 HOH A 224 551 551 HOH HOH . Q 6 HOH A 225 552 552 HOH HOH . Q 6 HOH A 226 553 553 HOH HOH . Q 6 HOH A 227 554 554 HOH HOH . Q 6 HOH A 228 555 555 HOH HOH . Q 6 HOH A 229 556 556 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 GOL . . . J 5 41.125 21.243 63.63 1 85.16 ? C1 GOL 321 A 1 HETATM 2 O O1 GOL . . . J 5 41.726 21.231 62.328 1 85.16 ? O1 GOL 321 A 1 HETATM 3 C C2 GOL . . . J 5 41.97 22.047 64.619 1 85.16 ? C2 GOL 321 A 1 HETATM 4 O O2 GOL . . . J 5 42.893 21.141 65.232 1 85.16 ? O2 GOL 321 A 1 HETATM 5 C C3 GOL . . . J 5 40.986 22.55 65.677 1 85.16 ? C3 GOL 321 A 1 HETATM 6 O O3 GOL . . . J 5 41.594 23.465 66.596 1 85.16 ? O3 GOL 321 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 6 #