data_7TPZ # _model_server_result.job_id h8r6XD4LQwGJcUGw5QagLg _model_server_result.datetime_utc '2024-11-17 13:53:23' _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 7tpz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 7TPZ # _exptl.entry_id 7TPZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _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 90 _cell.angle_gamma 90 _cell.entry_id 7TPZ _cell.length_a 45.522 _cell.length_b 73.711 _cell.length_c 74.665 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7TPZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 21' # _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 _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' 2_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -73.711 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 OG SER 17 A SER 16 1_555 C MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc2 A SG CYS 98 A CYS 97 1_555 B FE1 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc3 A SG CYS 133 A CYS 132 1_555 B FE2 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc4 C MG MG . A MG 302 1_555 D O3B ADP . A ADP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc5 C MG MG . A MG 302 1_555 E O HOH . A HOH 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc6 C MG MG . A MG 302 1_555 E O HOH . A HOH 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc7 C MG MG . A MG 302 1_555 E O HOH . A HOH 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc8 C MG MG . A MG 302 1_555 E O HOH . A HOH 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? # _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 7TPZ _atom_sites.fract_transf_matrix[1][1] 0.021967 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013566 _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] 0.013393 _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 SF4 A 1 301 301 SF4 SF4 . C 3 MG A 1 302 305 MG MG . D 4 ADP A 1 303 306 ADP ADP . E 5 HOH A 1 401 16 HOH HOH . E 5 HOH A 2 402 43 HOH HOH . E 5 HOH A 3 403 126 HOH HOH . E 5 HOH A 4 404 52 HOH HOH . E 5 HOH A 5 405 124 HOH HOH . E 5 HOH A 6 406 32 HOH HOH . E 5 HOH A 7 407 56 HOH HOH . E 5 HOH A 8 408 90 HOH HOH . E 5 HOH A 9 409 122 HOH HOH . E 5 HOH A 10 410 112 HOH HOH . E 5 HOH A 11 411 92 HOH HOH . E 5 HOH A 12 412 37 HOH HOH . E 5 HOH A 13 413 109 HOH HOH . E 5 HOH A 14 414 110 HOH HOH . E 5 HOH A 15 415 57 HOH HOH . E 5 HOH A 16 416 27 HOH HOH . E 5 HOH A 17 417 48 HOH HOH . E 5 HOH A 18 418 9 HOH HOH . E 5 HOH A 19 419 108 HOH HOH . E 5 HOH A 20 420 114 HOH HOH . E 5 HOH A 21 421 85 HOH HOH . E 5 HOH A 22 422 11 HOH HOH . E 5 HOH A 23 423 14 HOH HOH . E 5 HOH A 24 424 30 HOH HOH . E 5 HOH A 25 425 72 HOH HOH . E 5 HOH A 26 426 89 HOH HOH . E 5 HOH A 27 427 17 HOH HOH . E 5 HOH A 28 428 2 HOH HOH . E 5 HOH A 29 429 22 HOH HOH . E 5 HOH A 30 430 12 HOH HOH . E 5 HOH A 31 431 73 HOH HOH . E 5 HOH A 32 432 134 HOH HOH . E 5 HOH A 33 433 62 HOH HOH . E 5 HOH A 34 434 25 HOH HOH . E 5 HOH A 35 435 74 HOH HOH . E 5 HOH A 36 436 10 HOH HOH . E 5 HOH A 37 437 4 HOH HOH . E 5 HOH A 38 438 87 HOH HOH . E 5 HOH A 39 439 5 HOH HOH . E 5 HOH A 40 440 61 HOH HOH . E 5 HOH A 41 441 35 HOH HOH . E 5 HOH A 42 442 47 HOH HOH . E 5 HOH A 43 443 6 HOH HOH . E 5 HOH A 44 444 28 HOH HOH . E 5 HOH A 45 445 19 HOH HOH . E 5 HOH A 46 446 82 HOH HOH . E 5 HOH A 47 447 40 HOH HOH . E 5 HOH A 48 448 3 HOH HOH . E 5 HOH A 49 449 50 HOH HOH . E 5 HOH A 50 450 33 HOH HOH . E 5 HOH A 51 451 23 HOH HOH . E 5 HOH A 52 452 8 HOH HOH . E 5 HOH A 53 453 1 HOH HOH . E 5 HOH A 54 454 77 HOH HOH . E 5 HOH A 55 455 51 HOH HOH . E 5 HOH A 56 456 84 HOH HOH . E 5 HOH A 57 457 24 HOH HOH . E 5 HOH A 58 458 21 HOH HOH . E 5 HOH A 59 459 127 HOH HOH . E 5 HOH A 60 460 49 HOH HOH . E 5 HOH A 61 461 34 HOH HOH . E 5 HOH A 62 462 68 HOH HOH . E 5 HOH A 63 463 75 HOH HOH . E 5 HOH A 64 464 58 HOH HOH . E 5 HOH A 65 465 18 HOH HOH . E 5 HOH A 66 466 66 HOH HOH . E 5 HOH A 67 467 41 HOH HOH . E 5 HOH A 68 468 129 HOH HOH . E 5 HOH A 69 469 15 HOH HOH . E 5 HOH A 70 470 7 HOH HOH . E 5 HOH A 71 471 64 HOH HOH . E 5 HOH A 72 472 54 HOH HOH . E 5 HOH A 73 473 96 HOH HOH . E 5 HOH A 74 474 31 HOH HOH . E 5 HOH A 75 475 121 HOH HOH . E 5 HOH A 76 476 45 HOH HOH . E 5 HOH A 77 477 36 HOH HOH . E 5 HOH A 78 478 130 HOH HOH . E 5 HOH A 79 479 55 HOH HOH . E 5 HOH A 80 480 106 HOH HOH . E 5 HOH A 81 481 81 HOH HOH . E 5 HOH A 82 482 69 HOH HOH . E 5 HOH A 83 483 20 HOH HOH . E 5 HOH A 84 484 91 HOH HOH . E 5 HOH A 85 485 29 HOH HOH . E 5 HOH A 86 486 95 HOH HOH . E 5 HOH A 87 487 116 HOH HOH . E 5 HOH A 88 488 65 HOH HOH . E 5 HOH A 89 489 42 HOH HOH . E 5 HOH A 90 490 86 HOH HOH . E 5 HOH A 91 491 80 HOH HOH . E 5 HOH A 92 492 123 HOH HOH . E 5 HOH A 93 493 132 HOH HOH . E 5 HOH A 94 494 71 HOH HOH . E 5 HOH A 95 495 113 HOH HOH . E 5 HOH A 96 496 131 HOH HOH . E 5 HOH A 97 497 39 HOH HOH . E 5 HOH A 98 498 105 HOH HOH . E 5 HOH A 99 499 53 HOH HOH . E 5 HOH A 100 500 97 HOH HOH . E 5 HOH A 101 501 46 HOH HOH . E 5 HOH A 102 502 76 HOH HOH . E 5 HOH A 103 503 44 HOH HOH . E 5 HOH A 104 504 120 HOH HOH . E 5 HOH A 105 505 38 HOH HOH . E 5 HOH A 106 506 133 HOH HOH . E 5 HOH A 107 507 26 HOH HOH . E 5 HOH A 108 508 119 HOH HOH . E 5 HOH A 109 509 115 HOH HOH . E 5 HOH A 110 510 78 HOH HOH . E 5 HOH A 111 511 83 HOH HOH . E 5 HOH A 112 512 99 HOH HOH . E 5 HOH A 113 513 67 HOH HOH . E 5 HOH A 114 514 13 HOH HOH . E 5 HOH A 115 515 111 HOH HOH . E 5 HOH A 116 516 137 HOH HOH . E 5 HOH A 117 517 128 HOH HOH . E 5 HOH A 118 518 88 HOH HOH . E 5 HOH A 119 519 94 HOH HOH . E 5 HOH A 120 520 136 HOH HOH . E 5 HOH A 121 521 93 HOH HOH . E 5 HOH A 122 522 138 HOH HOH . E 5 HOH A 123 523 101 HOH HOH . E 5 HOH A 124 524 135 HOH HOH . E 5 HOH A 125 525 118 HOH HOH . E 5 HOH A 126 526 63 HOH HOH . E 5 HOH A 127 527 98 HOH HOH . E 5 HOH A 128 528 60 HOH HOH . E 5 HOH A 129 529 104 HOH HOH . E 5 HOH A 130 530 79 HOH HOH . E 5 HOH A 131 531 125 HOH HOH . E 5 HOH A 132 532 103 HOH HOH . E 5 HOH A 133 533 102 HOH HOH . E 5 HOH A 134 534 139 HOH HOH . E 5 HOH A 135 535 107 HOH HOH . E 5 HOH A 136 536 70 HOH HOH . E 5 HOH A 137 537 100 HOH HOH . E 5 HOH A 138 538 117 HOH HOH . E 5 HOH A 139 539 59 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 . . . D 4 -4.377 -28.714 -1.479 1 16.62 ? PB ADP 303 A 1 HETATM 2 O O1B ADP . . . D 4 -3.859 -29.848 -2.344 1 19.84 ? O1B ADP 303 A 1 HETATM 3 O O2B ADP . . . D 4 -4.398 -29.032 0.006 1 17 ? O2B ADP 303 A 1 HETATM 4 O O3B ADP . . . D 4 -3.709 -27.401 -1.827 1 17.64 ? O3B ADP 303 A 1 HETATM 5 P PA ADP . . . D 4 -6.696 -27.373 -2.661 1 18.6 ? PA ADP 303 A 1 HETATM 6 O O1A ADP . . . D 4 -6.13 -27.367 -4.063 1 18.07 ? O1A ADP 303 A 1 HETATM 7 O O2A ADP . . . D 4 -6.72 -26.109 -1.842 1 19.6 ? O2A ADP 303 A 1 HETATM 8 O O3A ADP . . . D 4 -5.947 -28.563 -1.86 1 16.79 ? O3A ADP 303 A 1 HETATM 9 O O5' ADP . . . D 4 -8.206 -27.971 -2.609 1 18.65 ? O5' ADP 303 A 1 HETATM 10 C C5' ADP . . . D 4 -8.511 -29.163 -3.328 1 21.54 ? C5' ADP 303 A 1 HETATM 11 C C4' ADP . . . D 4 -9.914 -29.048 -3.914 1 23.52 ? C4' ADP 303 A 1 HETATM 12 O O4' ADP . . . D 4 -10.866 -28.848 -2.856 1 23.2 ? O4' ADP 303 A 1 HETATM 13 C C3' ADP . . . D 4 -10.025 -27.874 -4.856 1 26.36 ? C3' ADP 303 A 1 HETATM 14 O O3' ADP . . . D 4 -10.828 -28.31 -5.953 1 33.31 ? O3' ADP 303 A 1 HETATM 15 C C2' ADP . . . D 4 -10.831 -26.865 -4.094 1 24.66 ? C2' ADP 303 A 1 HETATM 16 O O2' ADP . . . D 4 -11.644 -26.112 -4.982 1 30.38 ? O2' ADP 303 A 1 HETATM 17 C C1' ADP . . . D 4 -11.701 -27.75 -3.227 1 24.99 ? C1' ADP 303 A 1 HETATM 18 N N9 ADP . . . D 4 -12.074 -27.102 -1.966 1 23.1 ? N9 ADP 303 A 1 HETATM 19 C C8 ADP . . . D 4 -11.208 -26.736 -1.006 1 21.98 ? C8 ADP 303 A 1 HETATM 20 N N7 ADP . . . D 4 -11.862 -26.194 0.047 1 24.17 ? N7 ADP 303 A 1 HETATM 21 C C5 ADP . . . D 4 -13.19 -26.246 -0.245 1 19.81 ? C5 ADP 303 A 1 HETATM 22 C C6 ADP . . . D 4 -14.43 -25.831 0.444 1 24.32 ? C6 ADP 303 A 1 HETATM 23 N N6 ADP . . . D 4 -14.369 -25.278 1.682 1 21.26 ? N6 ADP 303 A 1 HETATM 24 N N1 ADP . . . D 4 -15.602 -26.054 -0.195 1 21.54 ? N1 ADP 303 A 1 HETATM 25 C C2 ADP . . . D 4 -15.638 -26.605 -1.43 1 22.49 ? C2 ADP 303 A 1 HETATM 26 N N3 ADP . . . D 4 -14.551 -27.007 -2.123 1 21.6 ? N3 ADP 303 A 1 HETATM 27 C C4 ADP . . . D 4 -13.319 -26.847 -1.575 1 24.21 ? C4 ADP 303 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 27 #