data_6GQ6 # _model_server_result.job_id BVty4Umv5uMXVoBYdohs6w _model_server_result.datetime_utc '2024-11-27 17:05:55' _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 6gq6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 6GQ6 # _exptl.entry_id 6GQ6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _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 115.98 _cell.angle_gamma 90 _cell.entry_id 6GQ6 _cell.length_a 53.256 _cell.length_b 42.214 _cell.length_c 54.002 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GQ6 _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,D _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 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 ASN 71 A ASN 51 1_555 B MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc2 B MG MG . A MG 301 1_555 C O2B ADP . A ADP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.898 ? metalc ? metalc3 B MG MG . A MG 301 1_555 C O1A ADP . A ADP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc4 B MG MG . A MG 301 1_555 D O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? metalc ? metalc5 B MG MG . A MG 301 1_555 D O HOH . A HOH 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc6 B MG MG . A MG 301 1_555 D O HOH . A HOH 429 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? # _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 6GQ6 _atom_sites.fract_transf_matrix[1][1] 0.018777 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.009151 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023689 _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] 0.0206 _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 1 301 1 MG MG . C 3 ADP A 1 302 1 ADP ADP . D 4 HOH A 1 401 120 HOH HOH . D 4 HOH A 2 402 95 HOH HOH . D 4 HOH A 3 403 73 HOH HOH . D 4 HOH A 4 404 3 HOH HOH . D 4 HOH A 5 405 129 HOH HOH . D 4 HOH A 6 406 6 HOH HOH . D 4 HOH A 7 407 117 HOH HOH . D 4 HOH A 8 408 88 HOH HOH . D 4 HOH A 9 409 77 HOH HOH . D 4 HOH A 10 410 10 HOH HOH . D 4 HOH A 11 411 8 HOH HOH . D 4 HOH A 12 412 110 HOH HOH . D 4 HOH A 13 413 36 HOH HOH . D 4 HOH A 14 414 34 HOH HOH . D 4 HOH A 15 415 83 HOH HOH . D 4 HOH A 16 416 19 HOH HOH . D 4 HOH A 17 417 65 HOH HOH . D 4 HOH A 18 418 106 HOH HOH . D 4 HOH A 19 419 22 HOH HOH . D 4 HOH A 20 420 94 HOH HOH . D 4 HOH A 21 421 100 HOH HOH . D 4 HOH A 22 422 82 HOH HOH . D 4 HOH A 23 423 57 HOH HOH . D 4 HOH A 24 424 18 HOH HOH . D 4 HOH A 25 425 103 HOH HOH . D 4 HOH A 26 426 50 HOH HOH . D 4 HOH A 27 427 108 HOH HOH . D 4 HOH A 28 428 38 HOH HOH . D 4 HOH A 29 429 2 HOH HOH . D 4 HOH A 30 430 33 HOH HOH . D 4 HOH A 31 431 14 HOH HOH . D 4 HOH A 32 432 122 HOH HOH . D 4 HOH A 33 433 21 HOH HOH . D 4 HOH A 34 434 5 HOH HOH . D 4 HOH A 35 435 29 HOH HOH . D 4 HOH A 36 436 111 HOH HOH . D 4 HOH A 37 437 20 HOH HOH . D 4 HOH A 38 438 26 HOH HOH . D 4 HOH A 39 439 52 HOH HOH . D 4 HOH A 40 440 42 HOH HOH . D 4 HOH A 41 441 53 HOH HOH . D 4 HOH A 42 442 1 HOH HOH . D 4 HOH A 43 443 32 HOH HOH . D 4 HOH A 44 444 39 HOH HOH . D 4 HOH A 45 445 60 HOH HOH . D 4 HOH A 46 446 11 HOH HOH . D 4 HOH A 47 447 4 HOH HOH . D 4 HOH A 48 448 44 HOH HOH . D 4 HOH A 49 449 102 HOH HOH . D 4 HOH A 50 450 9 HOH HOH . D 4 HOH A 51 451 48 HOH HOH . D 4 HOH A 52 452 90 HOH HOH . D 4 HOH A 53 453 76 HOH HOH . D 4 HOH A 54 454 12 HOH HOH . D 4 HOH A 55 455 58 HOH HOH . D 4 HOH A 56 456 115 HOH HOH . D 4 HOH A 57 457 89 HOH HOH . D 4 HOH A 58 458 101 HOH HOH . D 4 HOH A 59 459 15 HOH HOH . D 4 HOH A 60 460 99 HOH HOH . D 4 HOH A 61 461 113 HOH HOH . D 4 HOH A 62 462 23 HOH HOH . D 4 HOH A 63 463 13 HOH HOH . D 4 HOH A 64 464 16 HOH HOH . D 4 HOH A 65 465 81 HOH HOH . D 4 HOH A 66 466 28 HOH HOH . D 4 HOH A 67 467 7 HOH HOH . D 4 HOH A 68 468 31 HOH HOH . D 4 HOH A 69 469 59 HOH HOH . D 4 HOH A 70 470 49 HOH HOH . D 4 HOH A 71 471 17 HOH HOH . D 4 HOH A 72 472 85 HOH HOH . D 4 HOH A 73 473 47 HOH HOH . D 4 HOH A 74 474 62 HOH HOH . D 4 HOH A 75 475 55 HOH HOH . D 4 HOH A 76 476 46 HOH HOH . D 4 HOH A 77 477 40 HOH HOH . D 4 HOH A 78 478 72 HOH HOH . D 4 HOH A 79 479 130 HOH HOH . D 4 HOH A 80 480 84 HOH HOH . D 4 HOH A 81 481 68 HOH HOH . D 4 HOH A 82 482 67 HOH HOH . D 4 HOH A 83 483 27 HOH HOH . D 4 HOH A 84 484 30 HOH HOH . D 4 HOH A 85 485 63 HOH HOH . D 4 HOH A 86 486 75 HOH HOH . D 4 HOH A 87 487 116 HOH HOH . D 4 HOH A 88 488 80 HOH HOH . D 4 HOH A 89 489 128 HOH HOH . D 4 HOH A 90 490 41 HOH HOH . D 4 HOH A 91 491 56 HOH HOH . D 4 HOH A 92 492 61 HOH HOH . D 4 HOH A 93 493 92 HOH HOH . D 4 HOH A 94 494 69 HOH HOH . D 4 HOH A 95 495 43 HOH HOH . D 4 HOH A 96 496 97 HOH HOH . D 4 HOH A 97 497 104 HOH HOH . D 4 HOH A 98 498 51 HOH HOH . D 4 HOH A 99 499 109 HOH HOH . D 4 HOH A 100 500 86 HOH HOH . D 4 HOH A 101 501 78 HOH HOH . D 4 HOH A 102 502 70 HOH HOH . D 4 HOH A 103 503 25 HOH HOH . D 4 HOH A 104 504 125 HOH HOH . D 4 HOH A 105 505 24 HOH HOH . D 4 HOH A 106 506 64 HOH HOH . D 4 HOH A 107 507 119 HOH HOH . D 4 HOH A 108 508 37 HOH HOH . D 4 HOH A 109 509 114 HOH HOH . D 4 HOH A 110 510 66 HOH HOH . D 4 HOH A 111 511 35 HOH HOH . D 4 HOH A 112 512 91 HOH HOH . D 4 HOH A 113 513 96 HOH HOH . D 4 HOH A 114 514 54 HOH HOH . D 4 HOH A 115 515 124 HOH HOH . D 4 HOH A 116 516 87 HOH HOH . D 4 HOH A 117 517 118 HOH HOH . D 4 HOH A 118 518 74 HOH HOH . D 4 HOH A 119 519 71 HOH HOH . D 4 HOH A 120 520 107 HOH HOH . D 4 HOH A 121 521 123 HOH HOH . D 4 HOH A 122 522 105 HOH HOH . D 4 HOH A 123 523 121 HOH HOH . D 4 HOH A 124 524 45 HOH HOH . D 4 HOH A 125 525 98 HOH HOH . D 4 HOH A 126 526 93 HOH HOH . D 4 HOH A 127 527 79 HOH HOH . D 4 HOH A 128 528 112 HOH HOH . D 4 HOH A 129 529 126 HOH HOH . D 4 HOH A 130 530 127 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 . . . C 3 -22.953 1.796 3.946 1 15.95 ? PB ADP 302 A 1 HETATM 2 O O1B ADP . . . C 3 -23.013 1.858 2.468 1 17.64 ? O1B ADP 302 A 1 HETATM 3 O O2B ADP . . . C 3 -21.879 2.661 4.51 1 17.25 ? O2B ADP 302 A 1 HETATM 4 O O3B ADP . . . C 3 -24.302 1.92 4.597 1 17.78 ? O3B ADP 302 A 1 HETATM 5 P PA ADP . . . C 3 -21.408 -0.134 5.37 1 15.47 ? PA ADP 302 A 1 HETATM 6 O O1A ADP . . . C 3 -20.163 0.644 5.072 1 14.01 ? O1A ADP 302 A 1 HETATM 7 O O2A ADP . . . C 3 -21.27 -1.608 5.455 1 16.65 ? O2A ADP 302 A 1 HETATM 8 O O3A ADP . . . C 3 -22.552 0.268 4.306 1 16.99 ? O3A ADP 302 A 1 HETATM 9 O O5' ADP . . . C 3 -22.083 0.413 6.689 1 16.4 ? O5' ADP 302 A 1 HETATM 10 C C5' ADP . . . C 3 -23.162 -0.32 7.254 1 17.88 ? C5' ADP 302 A 1 HETATM 11 C C4' ADP . . . C 3 -23.981 0.568 8.212 1 18.31 ? C4' ADP 302 A 1 HETATM 12 O O4' ADP . . . C 3 -23.318 0.53 9.498 1 19.24 ? O4' ADP 302 A 1 HETATM 13 C C3' ADP . . . C 3 -24.031 2.047 7.878 1 19.25 ? C3' ADP 302 A 1 HETATM 14 O O3' ADP . . . C 3 -25.115 2.372 6.971 1 22.51 ? O3' ADP 302 A 1 HETATM 15 C C2' ADP . . . C 3 -24.123 2.71 9.254 1 20.39 ? C2' ADP 302 A 1 HETATM 16 O O2' ADP . . . C 3 -25.484 2.784 9.703 1 22.54 ? O2' ADP 302 A 1 HETATM 17 C C1' ADP . . . C 3 -23.505 1.72 10.216 1 18.36 ? C1' ADP 302 A 1 HETATM 18 N N9 ADP . . . C 3 -22.18 2.226 10.578 1 17.33 ? N9 ADP 302 A 1 HETATM 19 C C8 ADP . . . C 3 -20.997 1.693 10.223 1 16.72 ? C8 ADP 302 A 1 HETATM 20 N N7 ADP . . . C 3 -20 2.43 10.766 1 17.28 ? N7 ADP 302 A 1 HETATM 21 C C5 ADP . . . C 3 -20.576 3.441 11.497 1 15.59 ? C5 ADP 302 A 1 HETATM 22 C C6 ADP . . . C 3 -20.121 4.557 12.326 1 15.15 ? C6 ADP 302 A 1 HETATM 23 N N6 ADP . . . C 3 -18.806 4.799 12.504 1 14.65 ? N6 ADP 302 A 1 HETATM 24 N N1 ADP . . . C 3 -21.036 5.344 12.915 1 16.02 ? N1 ADP 302 A 1 HETATM 25 C C2 ADP . . . C 3 -22.359 5.128 12.767 1 15.95 ? C2 ADP 302 A 1 HETATM 26 N N3 ADP . . . C 3 -22.822 4.121 12.019 1 16.13 ? N3 ADP 302 A 1 HETATM 27 C C4 ADP . . . C 3 -21.995 3.279 11.38 1 16.17 ? C4 ADP 302 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #