data_1SQK # _model_server_result.job_id d9qlq6mtMyyFyNz64vpbzQ _model_server_result.datetime_utc '2024-11-29 10:24:54' _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 1sqk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":377}' # _entry.id 1SQK # _exptl.entry_id 1SQK _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 1SQK _cell.length_a 67.494 _cell.length_b 75.198 _cell.length_c 85.314 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1SQK _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 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,F,G _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 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 C MG MG . A MG 376 1_555 D O3B ADP . A ADP 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc2 C MG MG . A MG 376 1_555 F O HOH . A HOH 459 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc3 C MG MG . A MG 376 1_555 F O HOH . A HOH 460 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc4 C MG MG . A MG 376 1_555 F O HOH . A HOH 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc5 C MG MG . A MG 376 1_555 F O HOH . A HOH 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc6 C MG MG . A MG 376 1_555 F O HOH . A HOH 464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? # _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 1SQK _atom_sites.fract_transf_matrix[1][1] 0.014816 _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] 0.013298 _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] 0.011721 _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 C 3 MG A 1 376 3 MG MG . D 4 ADP A 1 377 1 ADP ADP . E 5 LAR A 1 378 2 LAR LAR . F 6 HOH A 1 379 4 HOH HOH . F 6 HOH A 2 380 5 HOH HOH . F 6 HOH A 3 381 6 HOH HOH . F 6 HOH A 4 382 7 HOH HOH . F 6 HOH A 5 383 8 HOH HOH . F 6 HOH A 6 384 10 HOH HOH . F 6 HOH A 7 385 11 HOH HOH . F 6 HOH A 8 386 12 HOH HOH . F 6 HOH A 9 387 13 HOH HOH . F 6 HOH A 10 388 14 HOH HOH . F 6 HOH A 11 389 15 HOH HOH . F 6 HOH A 12 390 17 HOH HOH . F 6 HOH A 13 391 18 HOH HOH . F 6 HOH A 14 392 19 HOH HOH . F 6 HOH A 15 393 20 HOH HOH . F 6 HOH A 16 394 21 HOH HOH . F 6 HOH A 17 395 22 HOH HOH . F 6 HOH A 18 396 23 HOH HOH . F 6 HOH A 19 397 24 HOH HOH . F 6 HOH A 20 398 25 HOH HOH . F 6 HOH A 21 399 26 HOH HOH . F 6 HOH A 22 400 27 HOH HOH . F 6 HOH A 23 401 28 HOH HOH . F 6 HOH A 24 402 29 HOH HOH . F 6 HOH A 25 403 30 HOH HOH . F 6 HOH A 26 404 31 HOH HOH . F 6 HOH A 27 405 32 HOH HOH . F 6 HOH A 28 406 33 HOH HOH . F 6 HOH A 29 407 34 HOH HOH . F 6 HOH A 30 408 35 HOH HOH . F 6 HOH A 31 409 36 HOH HOH . F 6 HOH A 32 410 37 HOH HOH . F 6 HOH A 33 411 38 HOH HOH . F 6 HOH A 34 412 39 HOH HOH . F 6 HOH A 35 413 40 HOH HOH . F 6 HOH A 36 414 41 HOH HOH . F 6 HOH A 37 415 42 HOH HOH . F 6 HOH A 38 416 43 HOH HOH . F 6 HOH A 39 417 44 HOH HOH . F 6 HOH A 40 418 45 HOH HOH . F 6 HOH A 41 419 46 HOH HOH . F 6 HOH A 42 420 47 HOH HOH . F 6 HOH A 43 421 48 HOH HOH . F 6 HOH A 44 422 49 HOH HOH . F 6 HOH A 45 423 50 HOH HOH . F 6 HOH A 46 424 51 HOH HOH . F 6 HOH A 47 425 52 HOH HOH . F 6 HOH A 48 426 53 HOH HOH . F 6 HOH A 49 427 54 HOH HOH . F 6 HOH A 50 428 55 HOH HOH . F 6 HOH A 51 429 56 HOH HOH . F 6 HOH A 52 430 57 HOH HOH . F 6 HOH A 53 431 58 HOH HOH . F 6 HOH A 54 432 59 HOH HOH . F 6 HOH A 55 433 60 HOH HOH . F 6 HOH A 56 434 61 HOH HOH . F 6 HOH A 57 435 62 HOH HOH . F 6 HOH A 58 436 63 HOH HOH . F 6 HOH A 59 437 64 HOH HOH . F 6 HOH A 60 438 65 HOH HOH . F 6 HOH A 61 439 66 HOH HOH . F 6 HOH A 62 440 67 HOH HOH . F 6 HOH A 63 441 68 HOH HOH . F 6 HOH A 64 442 69 HOH HOH . F 6 HOH A 65 443 70 HOH HOH . F 6 HOH A 66 444 71 HOH HOH . F 6 HOH A 67 445 72 HOH HOH . F 6 HOH A 68 446 73 HOH HOH . F 6 HOH A 69 447 74 HOH HOH . F 6 HOH A 70 448 75 HOH HOH . F 6 HOH A 71 449 76 HOH HOH . F 6 HOH A 72 450 77 HOH HOH . F 6 HOH A 73 451 78 HOH HOH . F 6 HOH A 74 452 79 HOH HOH . F 6 HOH A 75 453 80 HOH HOH . F 6 HOH A 76 454 81 HOH HOH . F 6 HOH A 77 455 82 HOH HOH . F 6 HOH A 78 456 83 HOH HOH . F 6 HOH A 79 457 84 HOH HOH . F 6 HOH A 80 458 85 HOH HOH . F 6 HOH A 81 459 86 HOH HOH . F 6 HOH A 82 460 87 HOH HOH . F 6 HOH A 83 461 88 HOH HOH . F 6 HOH A 84 462 89 HOH HOH . F 6 HOH A 85 463 90 HOH HOH . F 6 HOH A 86 464 91 HOH HOH . F 6 HOH A 87 465 92 HOH HOH . F 6 HOH A 88 466 93 HOH HOH . F 6 HOH A 89 467 94 HOH HOH . F 6 HOH A 90 468 95 HOH HOH . G 6 HOH B 1 35 9 HOH HOH . G 6 HOH B 2 36 16 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 16.941 5.031 26.478 1 20.09 ? PB ADP 377 A 1 HETATM 2 O O1B ADP . . . D 4 15.667 5.555 26.006 1 22.49 ? O1B ADP 377 A 1 HETATM 3 O O2B ADP . . . D 4 18.341 5.411 25.831 1 20.32 ? O2B ADP 377 A 1 HETATM 4 O O3B ADP . . . D 4 16.96 4.526 27.887 1 19.04 ? O3B ADP 377 A 1 HETATM 5 P PA ADP . . . D 4 16.595 7.415 28.27 1 23.91 ? PA ADP 377 A 1 HETATM 6 O O1A ADP . . . D 4 15.472 6.788 28.929 1 21.74 ? O1A ADP 377 A 1 HETATM 7 O O2A ADP . . . D 4 17.656 7.635 29.244 1 24.72 ? O2A ADP 377 A 1 HETATM 8 O O3A ADP . . . D 4 17.182 6.514 27.061 1 22.22 ? O3A ADP 377 A 1 HETATM 9 O O5' ADP . . . D 4 16.196 8.842 27.705 1 24.84 ? O5' ADP 377 A 1 HETATM 10 C C5' ADP . . . D 4 16.409 9.28 26.381 1 24.53 ? C5' ADP 377 A 1 HETATM 11 C C4' ADP . . . D 4 15.745 10.669 26.172 1 22.07 ? C4' ADP 377 A 1 HETATM 12 O O4' ADP . . . D 4 15.403 11.473 27.325 1 20.59 ? O4' ADP 377 A 1 HETATM 13 C C3' ADP . . . D 4 16.453 11.616 25.165 1 20.13 ? C3' ADP 377 A 1 HETATM 14 O O3' ADP . . . D 4 15.666 11.916 24.006 1 21.08 ? O3' ADP 377 A 1 HETATM 15 C C2' ADP . . . D 4 16.82 12.839 25.991 1 19.04 ? C2' ADP 377 A 1 HETATM 16 O O2' ADP . . . D 4 16.989 14.022 25.216 1 18.76 ? O2' ADP 377 A 1 HETATM 17 C C1' ADP . . . D 4 15.694 12.85 26.982 1 18.61 ? C1' ADP 377 A 1 HETATM 18 N N9 ADP . . . D 4 15.932 13.724 28.189 1 17.9 ? N9 ADP 377 A 1 HETATM 19 C C8 ADP . . . D 4 16.952 13.632 29.066 1 19.19 ? C8 ADP 377 A 1 HETATM 20 N N7 ADP . . . D 4 16.835 14.586 29.984 1 18.14 ? N7 ADP 377 A 1 HETATM 21 C C5 ADP . . . D 4 15.769 15.284 29.723 1 17.82 ? C5 ADP 377 A 1 HETATM 22 C C6 ADP . . . D 4 15.056 16.485 30.333 1 18.89 ? C6 ADP 377 A 1 HETATM 23 N N6 ADP . . . D 4 15.539 17.081 31.423 1 19.09 ? N6 ADP 377 A 1 HETATM 24 N N1 ADP . . . D 4 13.895 16.956 29.742 1 18.18 ? N1 ADP 377 A 1 HETATM 25 C C2 ADP . . . D 4 13.367 16.374 28.618 1 16.95 ? C2 ADP 377 A 1 HETATM 26 N N3 ADP . . . D 4 14.006 15.293 28.056 1 16.62 ? N3 ADP 377 A 1 HETATM 27 C C4 ADP . . . D 4 15.173 14.732 28.562 1 18.16 ? C4 ADP 377 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #