data_3KEN # _model_server_result.job_id Yvebp7M28RmyyN63jCBoWw _model_server_result.datetime_utc '2024-10-22 03:42:28' _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 3ken # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1452}' # _entry.id 3KEN # _exptl.entry_id 3KEN _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 90 _cell.angle_gamma 90 _cell.entry_id 3KEN _cell.length_a 157.93 _cell.length_b 157.93 _cell.length_c 157.93 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KEN _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 3KEN _atom_sites.fract_transf_matrix[1][1] 0.006332 _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] 0.006332 _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] 0.006332 _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 1452 1452 ADP ADP . C 3 ZZD A 1 370 1 ZZD ZZD . D 4 KEN A 1 371 1 KEN KEN . E 5 MG A 1 701 701 MG MG . F 6 HOH A 1 372 1 HOH HOH . F 6 HOH A 2 373 2 HOH HOH . F 6 HOH A 3 374 3 HOH HOH . F 6 HOH A 4 375 4 HOH HOH . F 6 HOH A 5 376 5 HOH HOH . F 6 HOH A 6 377 6 HOH HOH . F 6 HOH A 7 378 7 HOH HOH . F 6 HOH A 8 379 8 HOH HOH . F 6 HOH A 9 380 9 HOH HOH . F 6 HOH A 10 381 10 HOH HOH . F 6 HOH A 11 382 11 HOH HOH . F 6 HOH A 12 383 12 HOH HOH . F 6 HOH A 13 384 13 HOH HOH . F 6 HOH A 14 385 14 HOH HOH . F 6 HOH A 15 386 15 HOH HOH . F 6 HOH A 16 387 16 HOH HOH . F 6 HOH A 17 388 17 HOH HOH . F 6 HOH A 18 389 18 HOH HOH . F 6 HOH A 19 390 19 HOH HOH . F 6 HOH A 20 391 20 HOH HOH . F 6 HOH A 21 392 21 HOH HOH . F 6 HOH A 22 393 22 HOH HOH . F 6 HOH A 23 394 23 HOH HOH . F 6 HOH A 24 395 24 HOH HOH . F 6 HOH A 25 396 25 HOH HOH . F 6 HOH A 26 397 26 HOH HOH . F 6 HOH A 27 398 27 HOH HOH . F 6 HOH A 28 399 28 HOH HOH . F 6 HOH A 29 400 29 HOH HOH . F 6 HOH A 30 401 30 HOH HOH . F 6 HOH A 31 402 31 HOH HOH . F 6 HOH A 32 403 32 HOH HOH . F 6 HOH A 33 404 33 HOH HOH . F 6 HOH A 34 405 34 HOH HOH . F 6 HOH A 35 406 35 HOH HOH . F 6 HOH A 36 407 36 HOH HOH . F 6 HOH A 37 408 37 HOH HOH . F 6 HOH A 38 409 38 HOH HOH . F 6 HOH A 39 410 39 HOH HOH . F 6 HOH A 40 411 40 HOH HOH . F 6 HOH A 41 412 41 HOH HOH . F 6 HOH A 42 413 42 HOH HOH . F 6 HOH A 43 414 43 HOH HOH . F 6 HOH A 44 415 44 HOH HOH . F 6 HOH A 45 416 45 HOH HOH . F 6 HOH A 46 417 46 HOH HOH . F 6 HOH A 47 418 47 HOH HOH . F 6 HOH A 48 419 48 HOH HOH . F 6 HOH A 49 420 49 HOH HOH . F 6 HOH A 50 421 50 HOH HOH . F 6 HOH A 51 422 51 HOH HOH . F 6 HOH A 52 423 52 HOH HOH . F 6 HOH A 53 424 53 HOH HOH . F 6 HOH A 54 425 54 HOH HOH . F 6 HOH A 55 426 55 HOH HOH . F 6 HOH A 56 427 56 HOH HOH . F 6 HOH A 57 428 57 HOH HOH . F 6 HOH A 58 429 58 HOH HOH . F 6 HOH A 59 430 59 HOH HOH . F 6 HOH A 60 431 60 HOH HOH . F 6 HOH A 61 432 61 HOH HOH . F 6 HOH A 62 433 62 HOH HOH . F 6 HOH A 63 434 63 HOH HOH . F 6 HOH A 64 435 64 HOH HOH . F 6 HOH A 65 436 65 HOH HOH . F 6 HOH A 66 437 66 HOH HOH . F 6 HOH A 67 438 67 HOH HOH . F 6 HOH A 68 439 68 HOH HOH . F 6 HOH A 69 440 69 HOH HOH . F 6 HOH A 70 441 70 HOH HOH . F 6 HOH A 71 442 71 HOH HOH . F 6 HOH A 72 443 72 HOH HOH . F 6 HOH A 73 444 73 HOH HOH . F 6 HOH A 74 445 74 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 -13.166 -8.43 64.789 1 20.12 ? PB ADP 1452 A 1 HETATM 2 O O1B ADP . . . B 2 -13.882 -9.458 65.632 1 23.82 ? O1B ADP 1452 A 1 HETATM 3 O O2B ADP . . . B 2 -12.506 -8.88 63.389 1 24.43 ? O2B ADP 1452 A 1 HETATM 4 O O3B ADP . . . B 2 -11.94 -7.814 65.549 1 20.79 ? O3B ADP 1452 A 1 HETATM 5 P PA ADP . . . B 2 -14.753 -6.695 65.857 1 24.93 ? PA ADP 1452 A 1 HETATM 6 O O1A ADP . . . B 2 -15.979 -7.49 66.005 1 19.96 ? O1A ADP 1452 A 1 HETATM 7 O O2A ADP . . . B 2 -13.794 -6.8 67.172 1 30.11 ? O2A ADP 1452 A 1 HETATM 8 O O3A ADP . . . B 2 -13.921 -7.094 64.567 1 25.52 ? O3A ADP 1452 A 1 HETATM 9 O O5' ADP . . . B 2 -15.064 -5.253 65.497 1 26.89 ? O5' ADP 1452 A 1 HETATM 10 C C5' ADP . . . B 2 -15.866 -4.839 66.443 1 31.51 ? C5' ADP 1452 A 1 HETATM 11 C C4' ADP . . . B 2 -16.025 -3.405 66.258 1 29.96 ? C4' ADP 1452 A 1 HETATM 12 O O4' ADP . . . B 2 -16.236 -3.06 64.901 1 28.51 ? O4' ADP 1452 A 1 HETATM 13 C C3' ADP . . . B 2 -17.151 -3.204 67.179 1 29.99 ? C3' ADP 1452 A 1 HETATM 14 O O3' ADP . . . B 2 -16.869 -2.342 68.286 1 31.94 ? O3' ADP 1452 A 1 HETATM 15 C C2' ADP . . . B 2 -18.238 -2.733 66.215 1 30.85 ? C2' ADP 1452 A 1 HETATM 16 O O2' ADP . . . B 2 -18.821 -1.541 66.653 1 37.69 ? O2' ADP 1452 A 1 HETATM 17 C C1' ADP . . . B 2 -17.51 -2.549 64.837 1 28.2 ? C1' ADP 1452 A 1 HETATM 18 N N9 ADP . . . B 2 -18.161 -3.083 63.658 1 25.66 ? N9 ADP 1452 A 1 HETATM 19 C C8 ADP . . . B 2 -17.761 -4.127 62.852 1 24.94 ? C8 ADP 1452 A 1 HETATM 20 N N7 ADP . . . B 2 -18.613 -4.269 61.877 1 25.17 ? N7 ADP 1452 A 1 HETATM 21 C C5 ADP . . . B 2 -19.577 -3.327 62 1 23.32 ? C5 ADP 1452 A 1 HETATM 22 C C6 ADP . . . B 2 -20.721 -2.969 61.271 1 22.54 ? C6 ADP 1452 A 1 HETATM 23 N N6 ADP . . . B 2 -21.056 -3.667 60.131 1 21.88 ? N6 ADP 1452 A 1 HETATM 24 N N1 ADP . . . B 2 -21.483 -1.935 61.713 1 22.8 ? N1 ADP 1452 A 1 HETATM 25 C C2 ADP . . . B 2 -21.167 -1.248 62.813 1 22.53 ? C2 ADP 1452 A 1 HETATM 26 N N3 ADP . . . B 2 -20.092 -1.552 63.516 1 24.28 ? N3 ADP 1452 A 1 HETATM 27 C C4 ADP . . . B 2 -19.288 -2.57 63.15 1 24.33 ? C4 ADP 1452 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 318 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #