data_1QB8 # _model_server_result.job_id lYlqt3iFTCwDo18T6nq1OQ _model_server_result.datetime_utc '2025-01-25 14:04:04' _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 1qb8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":300}' # _entry.id 1QB8 # _exptl.entry_id 1QB8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 1QB8 _cell.length_a 64.04 _cell.length_b 64.04 _cell.length_c 235.95 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QB8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _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,E _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' 12_555 x,x-y,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 39.325 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 metalc ? metalc1 A OD1 ASP 145 A ASP 146 1_555 B MG MG . A MG 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? metalc ? metalc2 C O3' AMP . A AMP 300 1_555 B MG MG . A MG 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.878 ? metalc ? metalc3 D O4 CIT . A CIT 325 1_555 B MG MG . A MG 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.818 ? metalc ? metalc4 B MG MG . A MG 335 1_555 E O HOH . A HOH 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 1QB8 _atom_sites.fract_transf_matrix[1][1] 0.015615 _atom_sites.fract_transf_matrix[1][2] 0.009015 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018031 _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] 0.004238 _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 MG A 1 335 335 MG MG . C 3 AMP A 1 300 300 AMP AMP . D 4 CIT A 1 325 325 CIT CIT . E 5 HOH A 1 350 350 HOH HOH . E 5 HOH A 2 351 351 HOH HOH . E 5 HOH A 3 352 352 HOH HOH . E 5 HOH A 4 353 353 HOH HOH . E 5 HOH A 5 354 354 HOH HOH . E 5 HOH A 6 355 355 HOH HOH . E 5 HOH A 7 356 356 HOH HOH . E 5 HOH A 8 357 357 HOH HOH . E 5 HOH A 9 358 358 HOH HOH . E 5 HOH A 10 359 359 HOH HOH . E 5 HOH A 11 360 360 HOH HOH . E 5 HOH A 12 361 361 HOH HOH . E 5 HOH A 13 362 362 HOH HOH . E 5 HOH A 14 363 363 HOH HOH . E 5 HOH A 15 364 364 HOH HOH . E 5 HOH A 16 365 365 HOH HOH . E 5 HOH A 17 366 366 HOH HOH . E 5 HOH A 18 367 367 HOH HOH . E 5 HOH A 19 368 368 HOH HOH . E 5 HOH A 20 369 369 HOH HOH . E 5 HOH A 21 370 370 HOH HOH . E 5 HOH A 22 371 371 HOH HOH . E 5 HOH A 23 372 372 HOH HOH . E 5 HOH A 24 373 373 HOH HOH . E 5 HOH A 25 374 374 HOH HOH . E 5 HOH A 26 375 375 HOH HOH . E 5 HOH A 27 376 376 HOH HOH . E 5 HOH A 28 377 377 HOH HOH . E 5 HOH A 29 378 378 HOH HOH . E 5 HOH A 30 379 379 HOH HOH . E 5 HOH A 31 380 380 HOH HOH . E 5 HOH A 32 381 381 HOH HOH . E 5 HOH A 33 382 382 HOH HOH . E 5 HOH A 34 383 383 HOH HOH . E 5 HOH A 35 384 384 HOH HOH . E 5 HOH A 36 385 385 HOH HOH . E 5 HOH A 37 386 386 HOH HOH . E 5 HOH A 38 387 387 HOH HOH . E 5 HOH A 39 388 388 HOH HOH . E 5 HOH A 40 389 389 HOH HOH . E 5 HOH A 41 390 390 HOH HOH . E 5 HOH A 42 391 391 HOH HOH . E 5 HOH A 43 392 392 HOH HOH . E 5 HOH A 44 393 393 HOH HOH . E 5 HOH A 45 394 394 HOH HOH . E 5 HOH A 46 395 395 HOH HOH . E 5 HOH A 47 396 396 HOH HOH . E 5 HOH A 48 397 397 HOH HOH . E 5 HOH A 49 398 398 HOH HOH . E 5 HOH A 50 399 399 HOH HOH . E 5 HOH A 51 400 400 HOH HOH . E 5 HOH A 52 401 401 HOH HOH . E 5 HOH A 53 402 402 HOH HOH . E 5 HOH A 54 403 403 HOH HOH . E 5 HOH A 55 404 404 HOH HOH . E 5 HOH A 56 405 405 HOH HOH . E 5 HOH A 57 406 406 HOH HOH . E 5 HOH A 58 407 407 HOH HOH . E 5 HOH A 59 408 408 HOH HOH . E 5 HOH A 60 409 409 HOH HOH . E 5 HOH A 61 410 410 HOH HOH . E 5 HOH A 62 411 411 HOH HOH . E 5 HOH A 63 412 412 HOH HOH . E 5 HOH A 64 413 413 HOH HOH . E 5 HOH A 65 414 414 HOH HOH . E 5 HOH A 66 415 415 HOH HOH . E 5 HOH A 67 416 416 HOH HOH . E 5 HOH A 68 417 417 HOH HOH . E 5 HOH A 69 418 418 HOH HOH . E 5 HOH A 70 419 419 HOH HOH . E 5 HOH A 71 420 420 HOH HOH . E 5 HOH A 72 421 421 HOH HOH . E 5 HOH A 73 422 422 HOH HOH . E 5 HOH A 74 423 423 HOH HOH . E 5 HOH A 75 424 424 HOH HOH . E 5 HOH A 76 425 425 HOH HOH . E 5 HOH A 77 426 426 HOH HOH . E 5 HOH A 78 427 427 HOH HOH . E 5 HOH A 79 428 428 HOH HOH . E 5 HOH A 80 429 429 HOH HOH . E 5 HOH A 81 430 430 HOH HOH . E 5 HOH A 82 431 431 HOH HOH . E 5 HOH A 83 432 432 HOH HOH . E 5 HOH A 84 433 433 HOH HOH . E 5 HOH A 85 434 434 HOH HOH . E 5 HOH A 86 435 435 HOH HOH . E 5 HOH A 87 436 436 HOH HOH . E 5 HOH A 88 437 437 HOH HOH . E 5 HOH A 89 438 438 HOH HOH . E 5 HOH A 90 439 439 HOH HOH . E 5 HOH A 91 440 440 HOH HOH . E 5 HOH A 92 441 441 HOH HOH . E 5 HOH A 93 442 442 HOH HOH . E 5 HOH A 94 443 443 HOH HOH . E 5 HOH A 95 444 444 HOH HOH . E 5 HOH A 96 445 445 HOH HOH . E 5 HOH A 97 446 446 HOH HOH . E 5 HOH A 98 447 447 HOH HOH . E 5 HOH A 99 448 448 HOH HOH . E 5 HOH A 100 449 449 HOH HOH . E 5 HOH A 101 450 450 HOH HOH . E 5 HOH A 102 451 451 HOH HOH . E 5 HOH A 103 452 452 HOH HOH . E 5 HOH A 104 453 453 HOH HOH . E 5 HOH A 105 454 454 HOH HOH . E 5 HOH A 106 455 455 HOH HOH . E 5 HOH A 107 456 456 HOH HOH . E 5 HOH A 108 457 457 HOH HOH . E 5 HOH A 109 458 458 HOH HOH . E 5 HOH A 110 459 459 HOH HOH . E 5 HOH A 111 460 460 HOH HOH . E 5 HOH A 112 461 461 HOH HOH . E 5 HOH A 113 462 462 HOH HOH . E 5 HOH A 114 463 463 HOH HOH . E 5 HOH A 115 464 464 HOH HOH . E 5 HOH A 116 465 465 HOH HOH . E 5 HOH A 117 466 466 HOH HOH . E 5 HOH A 118 467 467 HOH HOH . E 5 HOH A 119 468 468 HOH HOH . E 5 HOH A 120 469 469 HOH HOH . E 5 HOH A 121 470 470 HOH HOH . E 5 HOH A 122 471 471 HOH HOH . E 5 HOH A 123 472 472 HOH HOH . E 5 HOH A 124 473 473 HOH HOH . E 5 HOH A 125 474 474 HOH HOH . E 5 HOH A 126 475 475 HOH HOH . E 5 HOH A 127 476 476 HOH HOH . E 5 HOH A 128 477 477 HOH HOH . E 5 HOH A 129 478 478 HOH HOH . E 5 HOH A 130 479 479 HOH HOH . E 5 HOH A 131 480 480 HOH HOH . E 5 HOH A 132 481 481 HOH HOH . E 5 HOH A 133 482 482 HOH HOH . E 5 HOH A 134 483 483 HOH HOH . E 5 HOH A 135 484 484 HOH HOH . E 5 HOH A 136 485 485 HOH HOH . E 5 HOH A 137 486 486 HOH HOH . E 5 HOH A 138 487 487 HOH HOH . E 5 HOH A 139 488 488 HOH HOH . E 5 HOH A 140 489 489 HOH HOH . E 5 HOH A 141 490 490 HOH HOH . E 5 HOH A 142 491 491 HOH HOH . E 5 HOH A 143 492 492 HOH HOH . E 5 HOH A 144 493 493 HOH HOH . E 5 HOH A 145 494 494 HOH HOH . E 5 HOH A 146 495 495 HOH HOH . E 5 HOH A 147 496 496 HOH HOH . E 5 HOH A 148 497 497 HOH HOH . E 5 HOH A 149 498 498 HOH HOH . E 5 HOH A 150 499 499 HOH HOH . E 5 HOH A 151 500 500 HOH HOH . E 5 HOH A 152 501 501 HOH HOH . E 5 HOH A 153 502 502 HOH HOH . E 5 HOH A 154 503 503 HOH HOH . E 5 HOH A 155 504 504 HOH HOH . E 5 HOH A 156 505 505 HOH HOH . E 5 HOH A 157 506 506 HOH HOH . E 5 HOH A 158 507 507 HOH HOH . E 5 HOH A 159 508 508 HOH HOH . E 5 HOH A 160 509 509 HOH HOH . E 5 HOH A 161 510 510 HOH HOH . E 5 HOH A 162 511 511 HOH HOH . E 5 HOH A 163 512 512 HOH HOH . E 5 HOH A 164 513 513 HOH HOH . E 5 HOH A 165 514 514 HOH HOH . E 5 HOH A 166 515 515 HOH HOH . E 5 HOH A 167 516 516 HOH HOH . E 5 HOH A 168 517 517 HOH HOH . E 5 HOH A 169 518 518 HOH HOH . E 5 HOH A 170 519 519 HOH HOH . E 5 HOH A 171 520 520 HOH HOH . E 5 HOH A 172 521 521 HOH HOH . E 5 HOH A 173 522 522 HOH HOH . E 5 HOH A 174 523 523 HOH HOH . E 5 HOH A 175 524 524 HOH HOH . E 5 HOH A 176 525 525 HOH HOH . E 5 HOH A 177 526 526 HOH HOH . E 5 HOH A 178 527 527 HOH HOH . E 5 HOH A 179 528 528 HOH HOH . E 5 HOH A 180 529 529 HOH HOH . E 5 HOH A 181 530 530 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 P P AMP . . . C 3 28.652 29.035 9.765 1 34.75 ? P AMP 300 A 1 HETATM 2 O O1P AMP . . . C 3 29.71 28.147 9.227 1 29.03 ? O1P AMP 300 A 1 HETATM 3 O O2P AMP . . . C 3 27.295 28.947 9.19 1 25.41 ? O2P AMP 300 A 1 HETATM 4 O O3P AMP . . . C 3 29.157 30.546 9.696 1 30.07 ? O3P AMP 300 A 1 HETATM 5 O O5' AMP . . . C 3 28.539 28.825 11.263 1 35.12 ? O5' AMP 300 A 1 HETATM 6 C C5' AMP . . . C 3 29.461 27.87 12.009 1 39.43 ? C5' AMP 300 A 1 HETATM 7 C C4' AMP . . . C 3 28.838 27.359 13.298 1 42.45 ? C4' AMP 300 A 1 HETATM 8 O O4' AMP . . . C 3 28.997 28.38 14.28 1 41.65 ? O4' AMP 300 A 1 HETATM 9 C C3' AMP . . . C 3 27.317 27.059 13.196 1 44.98 ? C3' AMP 300 A 1 HETATM 10 O O3' AMP . . . C 3 27.016 25.682 13.115 1 51.95 ? O3' AMP 300 A 1 HETATM 11 C C2' AMP . . . C 3 26.691 27.528 14.472 1 45.1 ? C2' AMP 300 A 1 HETATM 12 O O2' AMP . . . C 3 26.826 26.472 15.419 1 47.84 ? O2' AMP 300 A 1 HETATM 13 C C1' AMP . . . C 3 27.701 28.65 14.733 1 40.77 ? C1' AMP 300 A 1 HETATM 14 N N9 AMP . . . C 3 27.276 30.001 14.978 1 36.39 ? N9 AMP 300 A 1 HETATM 15 C C8 AMP . . . C 3 27.367 31.079 14.145 1 35 ? C8 AMP 300 A 1 HETATM 16 N N7 AMP . . . C 3 26.629 32.074 14.543 1 33.03 ? N7 AMP 300 A 1 HETATM 17 C C5 AMP . . . C 3 25.997 31.661 15.711 1 31.69 ? C5 AMP 300 A 1 HETATM 18 C C6 AMP . . . C 3 25.091 32.26 16.609 1 30.5 ? C6 AMP 300 A 1 HETATM 19 N N6 AMP . . . C 3 24.628 33.518 16.444 1 27.71 ? N6 AMP 300 A 1 HETATM 20 N N1 AMP . . . C 3 24.697 31.501 17.665 1 31.1 ? N1 AMP 300 A 1 HETATM 21 C C2 AMP . . . C 3 25.157 30.264 17.819 1 29.71 ? C2 AMP 300 A 1 HETATM 22 N N3 AMP . . . C 3 26.013 29.577 17.049 1 29.97 ? N3 AMP 300 A 1 HETATM 23 C C4 AMP . . . C 3 26.42 30.331 15.979 1 33.72 ? C4 AMP 300 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 23 #