data_2ZGV # _model_server_result.job_id PvJQIxXAwdz4IxvGaINErw _model_server_result.datetime_utc '2024-11-05 23:16:18' _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 2zgv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":417}' # _entry.id 2ZGV # _exptl.entry_id 2ZGV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 97.3 _cell.angle_gamma 90 _cell.entry_id 2ZGV _cell.length_a 35.956 _cell.length_b 106.627 _cell.length_c 50.35 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZGV _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2ZGV _atom_sites.fract_transf_matrix[1][1] 0.027812 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003562 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009378 _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] 0.020023 _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 ADP A 1 417 1 ADP ADP . C 3 HOH A 1 418 1 HOH HOH . C 3 HOH A 2 419 2 HOH HOH . C 3 HOH A 3 420 3 HOH HOH . C 3 HOH A 4 421 4 HOH HOH . C 3 HOH A 5 422 5 HOH HOH . C 3 HOH A 6 423 6 HOH HOH . C 3 HOH A 7 424 7 HOH HOH . C 3 HOH A 8 425 8 HOH HOH . C 3 HOH A 9 426 9 HOH HOH . C 3 HOH A 10 427 10 HOH HOH . C 3 HOH A 11 428 11 HOH HOH . C 3 HOH A 12 429 12 HOH HOH . C 3 HOH A 13 430 13 HOH HOH . C 3 HOH A 14 431 14 HOH HOH . C 3 HOH A 15 432 15 HOH HOH . C 3 HOH A 16 433 16 HOH HOH . C 3 HOH A 17 434 17 HOH HOH . C 3 HOH A 18 435 18 HOH HOH . C 3 HOH A 19 436 19 HOH HOH . C 3 HOH A 20 437 20 HOH HOH . C 3 HOH A 21 438 21 HOH HOH . C 3 HOH A 22 439 22 HOH HOH . C 3 HOH A 23 440 23 HOH HOH . C 3 HOH A 24 441 24 HOH HOH . C 3 HOH A 25 442 25 HOH HOH . C 3 HOH A 26 443 26 HOH HOH . C 3 HOH A 27 444 27 HOH HOH . C 3 HOH A 28 445 28 HOH HOH . C 3 HOH A 29 446 29 HOH HOH . C 3 HOH A 30 447 30 HOH HOH . C 3 HOH A 31 448 31 HOH HOH . C 3 HOH A 32 449 32 HOH HOH . C 3 HOH A 33 450 33 HOH HOH . C 3 HOH A 34 451 34 HOH HOH . C 3 HOH A 35 452 35 HOH HOH . C 3 HOH A 36 453 36 HOH HOH . C 3 HOH A 37 454 37 HOH HOH . C 3 HOH A 38 455 38 HOH HOH . C 3 HOH A 39 456 39 HOH HOH . C 3 HOH A 40 457 40 HOH HOH . C 3 HOH A 41 458 41 HOH HOH . C 3 HOH A 42 459 42 HOH HOH . C 3 HOH A 43 460 43 HOH HOH . C 3 HOH A 44 461 44 HOH HOH . C 3 HOH A 45 462 45 HOH HOH . C 3 HOH A 46 463 46 HOH HOH . C 3 HOH A 47 464 47 HOH HOH . C 3 HOH A 48 465 48 HOH HOH . C 3 HOH A 49 466 49 HOH HOH . C 3 HOH A 50 467 50 HOH HOH . C 3 HOH A 51 468 51 HOH HOH . C 3 HOH A 52 469 52 HOH HOH . C 3 HOH A 53 470 53 HOH HOH . C 3 HOH A 54 471 54 HOH HOH . C 3 HOH A 55 472 55 HOH HOH . C 3 HOH A 56 473 56 HOH HOH . C 3 HOH A 57 474 57 HOH HOH . C 3 HOH A 58 475 58 HOH HOH . C 3 HOH A 59 476 59 HOH HOH . C 3 HOH A 60 477 60 HOH HOH . C 3 HOH A 61 478 61 HOH HOH . C 3 HOH A 62 479 62 HOH HOH . C 3 HOH A 63 480 63 HOH HOH . C 3 HOH A 64 481 64 HOH HOH . C 3 HOH A 65 482 65 HOH HOH . C 3 HOH A 66 483 66 HOH HOH . C 3 HOH A 67 484 67 HOH HOH . C 3 HOH A 68 485 68 HOH HOH . C 3 HOH A 69 486 69 HOH HOH . C 3 HOH A 70 487 70 HOH HOH . C 3 HOH A 71 488 71 HOH HOH . C 3 HOH A 72 489 72 HOH HOH . C 3 HOH A 73 490 73 HOH HOH . C 3 HOH A 74 491 74 HOH HOH . C 3 HOH A 75 492 75 HOH HOH . C 3 HOH A 76 493 76 HOH HOH . C 3 HOH A 77 494 77 HOH HOH . C 3 HOH A 78 495 78 HOH HOH . C 3 HOH A 79 496 79 HOH HOH . C 3 HOH A 80 497 80 HOH HOH . C 3 HOH A 81 498 81 HOH HOH . C 3 HOH A 82 499 82 HOH HOH . C 3 HOH A 83 500 83 HOH HOH . C 3 HOH A 84 501 84 HOH HOH . C 3 HOH A 85 502 85 HOH HOH . C 3 HOH A 86 503 86 HOH HOH . C 3 HOH A 87 504 87 HOH HOH . C 3 HOH A 88 505 88 HOH HOH . C 3 HOH A 89 506 89 HOH HOH . C 3 HOH A 90 507 90 HOH HOH . C 3 HOH A 91 508 91 HOH HOH . C 3 HOH A 92 509 92 HOH HOH . C 3 HOH A 93 510 93 HOH HOH . C 3 HOH A 94 511 94 HOH HOH . C 3 HOH A 95 512 95 HOH HOH . C 3 HOH A 96 513 96 HOH HOH . C 3 HOH A 97 514 97 HOH HOH . C 3 HOH A 98 515 98 HOH HOH . C 3 HOH A 99 516 99 HOH HOH . C 3 HOH A 100 517 100 HOH HOH . C 3 HOH A 101 518 101 HOH HOH . C 3 HOH A 102 519 102 HOH HOH . C 3 HOH A 103 520 103 HOH HOH . C 3 HOH A 104 521 104 HOH HOH . C 3 HOH A 105 522 105 HOH HOH . C 3 HOH A 106 523 106 HOH HOH . C 3 HOH A 107 524 107 HOH HOH . C 3 HOH A 108 525 108 HOH HOH . C 3 HOH A 109 526 109 HOH HOH . C 3 HOH A 110 527 110 HOH HOH . C 3 HOH A 111 528 111 HOH HOH . C 3 HOH A 112 529 112 HOH HOH . C 3 HOH A 113 530 113 HOH HOH . C 3 HOH A 114 531 114 HOH HOH . C 3 HOH A 115 532 115 HOH HOH . C 3 HOH A 116 533 116 HOH HOH . C 3 HOH A 117 534 117 HOH HOH . C 3 HOH A 118 535 118 HOH HOH . C 3 HOH A 119 536 119 HOH HOH . C 3 HOH A 120 537 120 HOH HOH . C 3 HOH A 121 538 121 HOH HOH . C 3 HOH A 122 539 122 HOH HOH . C 3 HOH A 123 540 123 HOH HOH . C 3 HOH A 124 541 124 HOH HOH . C 3 HOH A 125 542 125 HOH HOH . C 3 HOH A 126 543 126 HOH HOH . C 3 HOH A 127 544 127 HOH HOH . C 3 HOH A 128 545 128 HOH HOH . C 3 HOH A 129 546 129 HOH HOH . C 3 HOH A 130 547 130 HOH HOH . C 3 HOH A 131 548 131 HOH HOH . C 3 HOH A 132 549 132 HOH HOH . C 3 HOH A 133 550 133 HOH HOH . C 3 HOH A 134 551 134 HOH HOH . C 3 HOH A 135 552 135 HOH HOH . C 3 HOH A 136 553 136 HOH HOH . C 3 HOH A 137 554 137 HOH HOH . C 3 HOH A 138 555 138 HOH HOH . C 3 HOH A 139 556 139 HOH HOH . C 3 HOH A 140 557 140 HOH HOH . C 3 HOH A 141 558 141 HOH HOH . C 3 HOH A 142 559 142 HOH HOH . C 3 HOH A 143 560 143 HOH HOH . C 3 HOH A 144 561 144 HOH HOH . C 3 HOH A 145 562 145 HOH HOH . C 3 HOH A 146 563 146 HOH HOH . C 3 HOH A 147 564 147 HOH HOH . C 3 HOH A 148 565 148 HOH HOH . C 3 HOH A 149 566 149 HOH HOH . C 3 HOH A 150 567 150 HOH HOH . C 3 HOH A 151 568 151 HOH HOH . C 3 HOH A 152 569 152 HOH HOH . C 3 HOH A 153 570 153 HOH HOH . C 3 HOH A 154 571 154 HOH HOH . C 3 HOH A 155 572 155 HOH HOH . C 3 HOH A 156 573 156 HOH HOH . C 3 HOH A 157 574 157 HOH HOH . C 3 HOH A 158 575 158 HOH HOH . C 3 HOH A 159 576 159 HOH HOH . C 3 HOH A 160 577 160 HOH HOH . C 3 HOH A 161 578 161 HOH HOH . C 3 HOH A 162 579 162 HOH HOH . C 3 HOH A 163 580 163 HOH HOH . C 3 HOH A 164 581 164 HOH HOH . C 3 HOH A 165 582 165 HOH HOH . C 3 HOH A 166 583 166 HOH HOH . C 3 HOH A 167 584 167 HOH HOH . C 3 HOH A 168 585 168 HOH HOH . C 3 HOH A 169 586 169 HOH HOH . C 3 HOH A 170 587 170 HOH HOH . C 3 HOH A 171 588 171 HOH HOH . C 3 HOH A 172 589 172 HOH HOH . C 3 HOH A 173 590 173 HOH HOH . C 3 HOH A 174 591 174 HOH HOH . C 3 HOH A 175 592 175 HOH HOH . C 3 HOH A 176 593 176 HOH HOH . C 3 HOH A 177 594 177 HOH HOH . C 3 HOH A 178 595 178 HOH HOH . C 3 HOH A 179 596 179 HOH HOH . C 3 HOH A 180 597 180 HOH HOH . C 3 HOH A 181 598 181 HOH HOH . C 3 HOH A 182 599 182 HOH HOH . C 3 HOH A 183 600 183 HOH HOH . C 3 HOH A 184 601 184 HOH HOH . C 3 HOH A 185 602 185 HOH HOH . C 3 HOH A 186 603 186 HOH HOH . C 3 HOH A 187 604 187 HOH HOH . C 3 HOH A 188 605 188 HOH HOH . C 3 HOH A 189 606 189 HOH HOH . C 3 HOH A 190 607 190 HOH HOH . C 3 HOH A 191 608 191 HOH HOH . C 3 HOH A 192 609 192 HOH HOH . C 3 HOH A 193 610 193 HOH HOH . C 3 HOH A 194 611 194 HOH HOH . C 3 HOH A 195 612 195 HOH HOH . C 3 HOH A 196 613 196 HOH HOH . C 3 HOH A 197 614 197 HOH HOH . C 3 HOH A 198 615 198 HOH HOH . C 3 HOH A 199 616 199 HOH HOH . C 3 HOH A 200 617 200 HOH HOH . C 3 HOH A 201 618 201 HOH HOH . C 3 HOH A 202 619 202 HOH HOH . C 3 HOH A 203 620 203 HOH HOH . C 3 HOH A 204 621 204 HOH HOH . C 3 HOH A 205 622 205 HOH HOH . C 3 HOH A 206 623 206 HOH HOH . C 3 HOH A 207 624 207 HOH HOH . C 3 HOH A 208 625 208 HOH HOH . C 3 HOH A 209 626 209 HOH HOH . C 3 HOH A 210 627 210 HOH HOH . C 3 HOH A 211 628 211 HOH HOH . C 3 HOH A 212 629 212 HOH HOH . C 3 HOH A 213 630 213 HOH HOH . C 3 HOH A 214 631 214 HOH HOH . C 3 HOH A 215 632 215 HOH HOH . C 3 HOH A 216 633 216 HOH HOH . C 3 HOH A 217 634 217 HOH HOH . C 3 HOH A 218 635 218 HOH HOH . C 3 HOH A 219 636 219 HOH HOH . C 3 HOH A 220 637 220 HOH HOH . C 3 HOH A 221 638 221 HOH HOH . C 3 HOH A 222 639 222 HOH HOH . C 3 HOH A 223 640 223 HOH HOH . C 3 HOH A 224 641 224 HOH HOH . C 3 HOH A 225 642 225 HOH HOH . C 3 HOH A 226 643 226 HOH HOH . C 3 HOH A 227 644 227 HOH HOH . C 3 HOH A 228 645 228 HOH HOH . C 3 HOH A 229 646 229 HOH HOH . C 3 HOH A 230 647 230 HOH HOH . C 3 HOH A 231 648 231 HOH HOH . C 3 HOH A 232 649 232 HOH HOH . C 3 HOH A 233 650 233 HOH HOH . C 3 HOH A 234 651 234 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 PB ADP . . . B 2 9.17 0.693 19.819 1 52.58 ? PB ADP 417 A 1 HETATM 2 O O1B ADP . . . B 2 10.452 -0.133 19.811 1 51.85 ? O1B ADP 417 A 1 HETATM 3 O O2B ADP . . . B 2 8.912 1.503 18.569 1 51.94 ? O2B ADP 417 A 1 HETATM 4 O O3B ADP . . . B 2 7.891 0.034 20.306 1 52.17 ? O3B ADP 417 A 1 HETATM 5 P PA ADP . . . B 2 9.736 3.26 20.949 1 46.57 ? PA ADP 417 A 1 HETATM 6 O O1A ADP . . . B 2 11.046 3.513 21.674 1 45.3 ? O1A ADP 417 A 1 HETATM 7 O O2A ADP . . . B 2 9.332 3.823 19.608 1 40.67 ? O2A ADP 417 A 1 HETATM 8 O O3A ADP . . . B 2 9.576 1.661 21.036 1 49.51 ? O3A ADP 417 A 1 HETATM 9 O O5' ADP . . . B 2 8.553 3.68 21.965 1 41.5 ? O5' ADP 417 A 1 HETATM 10 C C5' ADP . . . B 2 7.205 3.717 21.51 1 32.59 ? C5' ADP 417 A 1 HETATM 11 C C4' ADP . . . B 2 6.367 3.455 22.743 1 28.86 ? C4' ADP 417 A 1 HETATM 12 O O4' ADP . . . B 2 6.715 4.395 23.761 1 24.96 ? O4' ADP 417 A 1 HETATM 13 C C3' ADP . . . B 2 4.902 3.67 22.393 1 26.99 ? C3' ADP 417 A 1 HETATM 14 O O3' ADP . . . B 2 4.187 2.427 22.399 1 25.74 ? O3' ADP 417 A 1 HETATM 15 C C2' ADP . . . B 2 4.38 4.673 23.414 1 22.13 ? C2' ADP 417 A 1 HETATM 16 O O2' ADP . . . B 2 3.224 4.203 24.116 1 18.97 ? O2' ADP 417 A 1 HETATM 17 C C1' ADP . . . B 2 5.523 4.804 24.411 1 21.76 ? C1' ADP 417 A 1 HETATM 18 N N9 ADP . . . B 2 5.495 6.169 24.995 1 17.65 ? N9 ADP 417 A 1 HETATM 19 C C8 ADP . . . B 2 5.195 7.306 24.338 1 15.09 ? C8 ADP 417 A 1 HETATM 20 N N7 ADP . . . B 2 5.204 8.344 25.201 1 17.78 ? N7 ADP 417 A 1 HETATM 21 C C5 ADP . . . B 2 5.467 7.893 26.427 1 15.03 ? C5 ADP 417 A 1 HETATM 22 C C6 ADP . . . B 2 5.625 8.477 27.767 1 16.39 ? C6 ADP 417 A 1 HETATM 23 N N6 ADP . . . B 2 5.482 9.799 27.994 1 16.19 ? N6 ADP 417 A 1 HETATM 24 N N1 ADP . . . B 2 5.932 7.635 28.779 1 17.1 ? N1 ADP 417 A 1 HETATM 25 C C2 ADP . . . B 2 6.072 6.315 28.581 1 16.62 ? C2 ADP 417 A 1 HETATM 26 N N3 ADP . . . B 2 5.973 5.719 27.371 1 17.29 ? N3 ADP 417 A 1 HETATM 27 C C4 ADP . . . B 2 5.669 6.44 26.279 1 16.02 ? C4 ADP 417 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 218 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #