data_3UB5 # _model_server_result.job_id bZePoQ8QDDx3D-sGJAIhfQ _model_server_result.datetime_utc '2024-11-09 02:19:21' _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 3ub5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":376}' # _entry.id 3UB5 # _exptl.entry_id 3UB5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 3UB5 _cell.length_a 38 _cell.length_b 72 _cell.length_c 186.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3UB5 _symmetry.cell_setting ? _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,H,I _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 covale ? covale1 B C ACE 1 P ACE 0 1_555 B N ALA 2 P ALA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? metalc ? metalc1 A O SER 198 A SER 199 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc2 A OG1 THR 200 A THR 201 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc3 A OE2 GLU 204 A GLU 205 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc4 C O2B ATP . A ATP 376 1_555 D CA CA . A CA 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc5 C O1B ATP . A ATP 376 1_555 D CA CA . A CA 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 76 n n PG O2G ATP sing 77 n n PG O3G ATP sing 78 n n PG O3B ATP sing 79 n n O2G HOG2 ATP sing 80 n n O3G HOG3 ATP sing 81 n n PB O1B ATP doub 82 n n PB O2B ATP sing 83 n n PB O3B ATP sing 84 n n PB O3A ATP sing 85 n n O2B HOB2 ATP sing 86 n n PA O1A ATP doub 87 n n PA O2A ATP sing 88 n n PA O3A ATP sing 89 n n PA O5' ATP sing 90 n n O2A HOA2 ATP sing 91 n n O5' C5' ATP sing 92 n n C5' C4' ATP sing 93 n n C5' "H5'1" ATP sing 94 n n C5' "H5'2" ATP sing 95 n n C4' O4' ATP sing 96 n n C4' C3' ATP sing 97 n n C4' H4' ATP sing 98 n n O4' C1' ATP sing 99 n n C3' O3' ATP sing 100 n n C3' C2' ATP sing 101 n n C3' H3' ATP sing 102 n n O3' HO3' ATP sing 103 n n C2' O2' ATP sing 104 n n C2' C1' ATP sing 105 n n C2' H2' ATP sing 106 n n O2' HO2' ATP sing 107 n n C1' N9 ATP sing 108 n n C1' H1' ATP sing 109 n n N9 C8 ATP sing 110 n y N9 C4 ATP sing 111 n y C8 N7 ATP doub 112 n y C8 H8 ATP sing 113 n n N7 C5 ATP sing 114 n y C5 C6 ATP sing 115 n y C5 C4 ATP doub 116 n y C6 N6 ATP sing 117 n n C6 N1 ATP doub 118 n y N6 HN61 ATP sing 119 n n N6 HN62 ATP sing 120 n n N1 C2 ATP sing 121 n y C2 N3 ATP doub 122 n y C2 H2 ATP sing 123 n n N3 C4 ATP sing 124 n y # _atom_sites.entry_id 3UB5 _atom_sites.fract_transf_matrix[1][1] 0.026316 _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] 0.013889 _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] 0.005353 _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 ATP A 1 376 376 ATP ATP . D 4 CA A 1 377 377 CA CA . E 4 CA A 1 378 378 CA CA . F 5 GOL P 1 140 140 GOL GOL . G 6 CL P 1 141 141 CL CL . H 7 HOH A 1 379 4 HOH HOH . H 7 HOH A 2 380 5 HOH HOH . H 7 HOH A 3 381 11 HOH HOH . H 7 HOH A 4 382 12 HOH HOH . H 7 HOH A 5 383 14 HOH HOH . H 7 HOH A 6 384 20 HOH HOH . H 7 HOH A 7 385 21 HOH HOH . H 7 HOH A 8 386 24 HOH HOH . H 7 HOH A 9 387 25 HOH HOH . H 7 HOH A 10 388 27 HOH HOH . H 7 HOH A 11 389 35 HOH HOH . H 7 HOH A 12 390 36 HOH HOH . H 7 HOH A 13 391 37 HOH HOH . H 7 HOH A 14 392 38 HOH HOH . H 7 HOH A 15 393 39 HOH HOH . H 7 HOH A 16 394 41 HOH HOH . H 7 HOH A 17 395 42 HOH HOH . H 7 HOH A 18 396 46 HOH HOH . H 7 HOH A 19 397 47 HOH HOH . H 7 HOH A 20 398 48 HOH HOH . H 7 HOH A 21 399 49 HOH HOH . H 7 HOH A 22 400 50 HOH HOH . H 7 HOH A 23 401 54 HOH HOH . H 7 HOH A 24 402 55 HOH HOH . H 7 HOH A 25 403 57 HOH HOH . H 7 HOH A 26 404 58 HOH HOH . H 7 HOH A 27 405 60 HOH HOH . H 7 HOH A 28 406 62 HOH HOH . H 7 HOH A 29 407 64 HOH HOH . H 7 HOH A 30 408 66 HOH HOH . H 7 HOH A 31 409 70 HOH HOH . H 7 HOH A 32 410 74 HOH HOH . H 7 HOH A 33 411 76 HOH HOH . H 7 HOH A 34 412 78 HOH HOH . H 7 HOH A 35 413 89 HOH HOH . H 7 HOH A 36 414 90 HOH HOH . H 7 HOH A 37 415 94 HOH HOH . H 7 HOH A 38 416 98 HOH HOH . H 7 HOH A 39 417 99 HOH HOH . H 7 HOH A 40 418 100 HOH HOH . H 7 HOH A 41 419 103 HOH HOH . H 7 HOH A 42 420 106 HOH HOH . H 7 HOH A 43 421 108 HOH HOH . H 7 HOH A 44 422 113 HOH HOH . H 7 HOH A 45 423 114 HOH HOH . H 7 HOH A 46 424 116 HOH HOH . H 7 HOH A 47 425 125 HOH HOH . H 7 HOH A 48 426 130 HOH HOH . H 7 HOH A 49 427 142 HOH HOH . H 7 HOH A 50 428 146 HOH HOH . H 7 HOH A 51 429 150 HOH HOH . H 7 HOH A 52 430 151 HOH HOH . H 7 HOH A 53 431 154 HOH HOH . H 7 HOH A 54 432 155 HOH HOH . H 7 HOH A 55 433 156 HOH HOH . I 7 HOH P 1 142 3 HOH HOH . I 7 HOH P 2 143 6 HOH HOH . I 7 HOH P 3 144 7 HOH HOH . I 7 HOH P 4 145 145 HOH HOH . I 7 HOH P 5 146 8 HOH HOH . I 7 HOH P 6 147 147 HOH HOH . I 7 HOH P 7 148 148 HOH HOH . I 7 HOH P 8 149 15 HOH HOH . I 7 HOH P 9 150 16 HOH HOH . I 7 HOH P 10 151 19 HOH HOH . I 7 HOH P 11 152 152 HOH HOH . I 7 HOH P 12 153 23 HOH HOH . I 7 HOH P 13 154 28 HOH HOH . I 7 HOH P 14 155 32 HOH HOH . I 7 HOH P 15 156 33 HOH HOH . I 7 HOH P 16 157 157 HOH HOH . I 7 HOH P 17 158 40 HOH HOH . I 7 HOH P 18 159 43 HOH HOH . I 7 HOH P 19 160 45 HOH HOH . I 7 HOH P 20 161 51 HOH HOH . I 7 HOH P 21 162 69 HOH HOH . I 7 HOH P 22 163 73 HOH HOH . I 7 HOH P 23 164 96 HOH HOH . I 7 HOH P 24 165 97 HOH HOH . I 7 HOH P 25 166 111 HOH HOH . I 7 HOH P 26 167 112 HOH HOH . I 7 HOH P 27 168 119 HOH HOH . I 7 HOH P 28 169 138 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 PG ATP . . . C 3 -8.416 -15.401 28.698 1 88.75 ? PG ATP 376 A 1 HETATM 2 O O1G ATP . . . C 3 -9.633 -16.299 28.863 1 69.46 ? O1G ATP 376 A 1 HETATM 3 O O2G ATP . . . C 3 -7.827 -15.309 27.291 1 75.87 ? O2G ATP 376 A 1 HETATM 4 O O3G ATP . . . C 3 -8.632 -14.037 29.325 1 76.66 ? O3G ATP 376 A 1 HETATM 5 P PB ATP . . . C 3 -5.621 -15.943 29.488 1 91.35 ? PB ATP 376 A 1 HETATM 6 O O1B ATP . . . C 3 -5.252 -14.54 29.067 1 93.35 ? O1B ATP 376 A 1 HETATM 7 O O2B ATP . . . C 3 -4.973 -16.728 30.617 1 89.12 ? O2B ATP 376 A 1 HETATM 8 O O3B ATP . . . C 3 -7.253 -16.092 29.626 1 88.62 ? O3B ATP 376 A 1 HETATM 9 P PA ATP . . . C 3 -3.82 -16.909 27.561 1 115.53 ? PA ATP 376 A 1 HETATM 10 O O1A ATP . . . C 3 -3.912 -16.533 26.077 1 91.34 ? O1A ATP 376 A 1 HETATM 11 O O2A ATP . . . C 3 -2.899 -16.136 28.496 1 103.08 ? O2A ATP 376 A 1 HETATM 12 O O3A ATP . . . C 3 -5.316 -16.818 28.171 1 102.7 ? O3A ATP 376 A 1 HETATM 13 O O5' ATP . . . C 3 -3.37 -18.475 27.707 1 95.39 ? O5' ATP 376 A 1 HETATM 14 C C5' ATP . . . C 3 -4.166 -19.555 28.22 1 70.53 ? C5' ATP 376 A 1 HETATM 15 C C4' ATP . . . C 3 -4.661 -20.488 27.094 1 55.9 ? C4' ATP 376 A 1 HETATM 16 O O4' ATP . . . C 3 -3.834 -20.548 25.921 1 45.71 ? O4' ATP 376 A 1 HETATM 17 C C3' ATP . . . C 3 -4.744 -21.922 27.571 1 52.37 ? C3' ATP 376 A 1 HETATM 18 O O3' ATP . . . C 3 -5.896 -22.507 26.959 1 53.45 ? O3' ATP 376 A 1 HETATM 19 C C2' ATP . . . C 3 -3.469 -22.521 27.025 1 49.74 ? C2' ATP 376 A 1 HETATM 20 O O2' ATP . . . C 3 -3.401 -23.951 26.961 1 52.33 ? O2' ATP 376 A 1 HETATM 21 C C1' ATP . . . C 3 -3.456 -21.895 25.651 1 43.27 ? C1' ATP 376 A 1 HETATM 22 N N9 ATP . . . C 3 -2.093 -22.031 25.119 1 38.41 ? N9 ATP 376 A 1 HETATM 23 C C8 ATP . . . C 3 -0.963 -21.438 25.57 1 39.31 ? C8 ATP 376 A 1 HETATM 24 N N7 ATP . . . C 3 0.138 -21.805 24.83 1 37.32 ? N7 ATP 376 A 1 HETATM 25 C C5 ATP . . . C 3 -0.305 -22.645 23.884 1 34.89 ? C5 ATP 376 A 1 HETATM 26 C C6 ATP . . . C 3 0.314 -23.407 22.794 1 34.36 ? C6 ATP 376 A 1 HETATM 27 N N6 ATP . . . C 3 1.655 -23.316 22.546 1 33.54 ? N6 ATP 376 A 1 HETATM 28 N N1 ATP . . . C 3 -0.525 -24.169 22.041 1 33.15 ? N1 ATP 376 A 1 HETATM 29 C C2 ATP . . . C 3 -1.854 -24.279 22.277 1 33.67 ? C2 ATP 376 A 1 HETATM 30 N N3 ATP . . . C 3 -2.489 -23.626 23.264 1 32.49 ? N3 ATP 376 A 1 HETATM 31 C C4 ATP . . . C 3 -1.774 -22.806 24.082 1 38.43 ? C4 ATP 376 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #