data_1Q1K # _model_server_result.job_id ABUi81evhtLzfqtrI7-kKQ _model_server_result.datetime_utc '2024-11-16 21:54:55' _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 1q1k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 1Q1K # _exptl.entry_id 1Q1K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 719.276 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHORIBOSYL ATP' _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 120 _cell.entry_id 1Q1K _cell.length_a 132.1 _cell.length_b 132.1 _cell.length_c 113.379 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Q1K _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2,3,4,5,6 # 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_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 132.1 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 66.05 114.401956 0 4 'crystal symmetry operation' 16_545 y+1/3,x-1/3,-z+2/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 66.05 -38.133985 75.586 5 'crystal symmetry operation' 17_555 x-y+1/3,-y+2/3,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 76.267971 75.586 6 'crystal symmetry operation' 18_655 -x+4/3,-x+y+2/3,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 132.1 76.267971 75.586 # _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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OH _struct_conn.ptnr1_label_comp_id TYR _struct_conn.ptnr1_label_seq_id 131 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id TYR _struct_conn.ptnr1_auth_seq_id 131 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id O2A _struct_conn.ptnr2_label_comp_id PRT _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PRT _struct_conn.ptnr2_auth_seq_id 500 _struct_conn.ptnr2_symmetry 1_555 _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 2.049 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C15 H25 N5 O20 P4' _chem_comp.formula_weight 719.276 _chem_comp.id PRT _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHORIBOSYL ATP' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '[[(2~{R},3~{S},4~{R},5~{R})-5-[6-azanylidene-1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate' # 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 O13 C13 PRT sing 275 n n O1P P PRT doub 276 n n C13 C14 PRT sing 277 n n C13 C12 PRT sing 278 n n C14 C15 PRT sing 279 n n C14 O14 PRT sing 280 n n C15 O15 PRT sing 281 n n O12 C12 PRT sing 282 n n C12 C11 PRT sing 283 n n P O15 PRT sing 284 n n P O2P PRT sing 285 n n P O3P PRT sing 286 n n O1B PB PRT doub 287 n n O14 C11 PRT sing 288 n n C11 N1 PRT sing 289 n n O2G PG PRT doub 290 n n O2A PA PRT doub 291 n n O2B PB PRT sing 292 n n PB O3B PRT sing 293 n n PB O3A PRT sing 294 n n O3G PG PRT sing 295 n n N1 C2 PRT sing 296 n n N1 C6 PRT sing 297 n n PG O3B PRT sing 298 n n PG O1G PRT sing 299 n n C2 N3 PRT doub 300 n n N6 C6 PRT doub 301 n n PA O3A PRT sing 302 n n PA O1A PRT sing 303 n n PA O5' PRT sing 304 n n C6 C5 PRT sing 305 n n N3 C4 PRT sing 306 n n O5' C5' PRT sing 307 n n C5 C4 PRT doub 308 n y C5 N7 PRT sing 309 n y C4 N9 PRT sing 310 n y N7 C8 PRT doub 311 n y C5' C4' PRT sing 312 n n C3' O3' PRT sing 313 n n C3' C4' PRT sing 314 n n C3' C2' PRT sing 315 n n N9 C8 PRT sing 316 n y N9 C1' PRT sing 317 n n C4' O4' PRT sing 318 n n O4' C1' PRT sing 319 n n C2' C1' PRT sing 320 n n C2' O2' PRT sing 321 n n O1G H1 PRT sing 322 n n O3G H2 PRT sing 323 n n O2B H3 PRT sing 324 n n O1A H4 PRT sing 325 n n C5' H5 PRT sing 326 n n C5' H6 PRT sing 327 n n C4' H7 PRT sing 328 n n C3' H8 PRT sing 329 n n O3' H9 PRT sing 330 n n C2' H10 PRT sing 331 n n O2' H11 PRT sing 332 n n C1' H12 PRT sing 333 n n C8 H13 PRT sing 334 n n N6 H14 PRT sing 335 n n C2 H16 PRT sing 336 n n C11 H17 PRT sing 337 n n C12 H18 PRT sing 338 n n O12 H19 PRT sing 339 n n C13 H20 PRT sing 340 n n O13 H21 PRT sing 341 n n C14 H22 PRT sing 342 n n C15 H23 PRT sing 343 n n C15 H24 PRT sing 344 n n O3P H25 PRT sing 345 n n O2P H26 PRT sing 346 n n # _atom_sites.entry_id 1Q1K _atom_sites.fract_transf_matrix[1][1] 0.00757 _atom_sites.fract_transf_matrix[1][2] 0.004371 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008741 _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] 0.00882 _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 PRT A 1 500 500 PRT PRT . C 3 TLA A 1 410 410 TLA TLA . D 3 TLA A 1 411 411 TLA TLA . # 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 O O1G PRT . . . B 2 41.784 37.665 41.719 0 61 ? O1G PRT 500 A 1 HETATM 2 P PG PRT . . . B 2 42.828 38.76 41.832 0 61.56 ? PG PRT 500 A 1 HETATM 3 O O2G PRT . . . B 2 43.762 38.237 42.886 0 61.61 ? O2G PRT 500 A 1 HETATM 4 O O3G PRT . . . B 2 43.48 39.463 40.661 0 60.86 ? O3G PRT 500 A 1 HETATM 5 O O3B PRT . . . B 2 41.949 39.958 42.463 0 62.19 ? O3B PRT 500 A 1 HETATM 6 P PB PRT . . . B 2 40.848 39.778 43.644 0 62.44 ? PB PRT 500 A 1 HETATM 7 O O1B PRT . . . B 2 39.489 40.272 43.151 0 61.63 ? O1B PRT 500 A 1 HETATM 8 O O2B PRT . . . B 2 40.945 38.34 44.096 0 62.04 ? O2B PRT 500 A 1 HETATM 9 O O3A PRT . . . B 2 41.467 40.802 44.786 0 61.01 ? O3A PRT 500 A 1 HETATM 10 P PA PRT . . . B 2 41.056 40.969 46.374 0 59.42 ? PA PRT 500 A 1 HETATM 11 O O1A PRT . . . B 2 41.875 40.021 47.26 0 60.17 ? O1A PRT 500 A 1 HETATM 12 O O2A PRT . . . B 2 39.53 40.995 46.419 0 61.08 ? O2A PRT 500 A 1 HETATM 13 O O5' PRT . . . B 2 41.471 42.486 46.767 0 51.8 ? O5' PRT 500 A 1 HETATM 14 C C5' PRT . . . B 2 41.999 42.734 48.102 0 58.43 ? C5' PRT 500 A 1 HETATM 15 C C4' PRT . . . B 2 43.318 42.018 48.168 0 59.06 ? C4' PRT 500 A 1 HETATM 16 O O4' PRT . . . B 2 44.349 42.286 47.181 0 53.52 ? O4' PRT 500 A 1 HETATM 17 C C3' PRT . . . B 2 43.806 41.716 49.342 0 55.78 ? C3' PRT 500 A 1 HETATM 18 O O3' PRT . . . B 2 43.063 41.212 50.231 0 52.67 ? O3' PRT 500 A 1 HETATM 19 C C2' PRT . . . B 2 45.107 42.242 49.3 0 52.87 ? C2' PRT 500 A 1 HETATM 20 O O2' PRT . . . B 2 46.136 41.737 49.827 0 51.82 ? O2' PRT 500 A 1 HETATM 21 C C1' PRT . . . B 2 45.151 43.023 48.159 0 57.7 ? C1' PRT 500 A 1 HETATM 22 N N9 PRT . . . B 2 45.878 44.102 48.011 1 78.15 ? N9 PRT 500 A 1 HETATM 23 C C8 PRT . . . B 2 46.457 44.904 48.95 1 77.41 ? C8 PRT 500 A 1 HETATM 24 C C4 PRT . . . B 2 45.824 44.749 46.829 1 76.36 ? C4 PRT 500 A 1 HETATM 25 C C5 PRT . . . B 2 46.443 46.075 47.105 1 76.4 ? C5 PRT 500 A 1 HETATM 26 N N7 PRT . . . B 2 46.801 46.11 48.41 1 77.02 ? N7 PRT 500 A 1 HETATM 27 C C6 PRT . . . B 2 46.528 47.018 45.956 1 75.48 ? C6 PRT 500 A 1 HETATM 28 N N6 PRT . . . B 2 47.093 48.24 46.168 1 75.33 ? N6 PRT 500 A 1 HETATM 29 N N3 PRT . . . B 2 45.369 44.47 45.58 1 74.11 ? N3 PRT 500 A 1 HETATM 30 C C2 PRT . . . B 2 45.479 45.387 44.574 1 74.55 ? C2 PRT 500 A 1 HETATM 31 N N1 PRT . . . B 2 46.025 46.634 44.747 1 75.59 ? N1 PRT 500 A 1 HETATM 32 C C11 PRT . . . B 2 46.163 47.521 43.696 1 77.1 ? C11 PRT 500 A 1 HETATM 33 C C12 PRT . . . B 2 45.261 48.229 43.002 1 78.13 ? C12 PRT 500 A 1 HETATM 34 O O12 PRT . . . B 2 44.294 47.749 42.439 1 80.62 ? O12 PRT 500 A 1 HETATM 35 C C13 PRT . . . B 2 45.844 49.326 42.535 1 77.94 ? C13 PRT 500 A 1 HETATM 36 O O13 PRT . . . B 2 45.534 49.818 41.459 1 77.68 ? O13 PRT 500 A 1 HETATM 37 O O14 PRT . . . B 2 47.488 48.05 43.413 1 77.77 ? O14 PRT 500 A 1 HETATM 38 C C14 PRT . . . B 2 47.078 49.382 43.035 1 77.6 ? C14 PRT 500 A 1 HETATM 39 C C15 PRT . . . B 2 47.739 50.473 43.461 1 76.13 ? C15 PRT 500 A 1 HETATM 40 O O15 PRT . . . B 2 48.737 50.384 44.527 1 72.46 ? O15 PRT 500 A 1 HETATM 41 P P PRT . . . B 2 49.565 51.704 44.959 1 71.51 ? P PRT 500 A 1 HETATM 42 O O3P PRT . . . B 2 50.892 51.197 45.436 1 72.76 ? O3P PRT 500 A 1 HETATM 43 O O1P PRT . . . B 2 49.8 52.508 43.707 1 71.01 ? O1P PRT 500 A 1 HETATM 44 O O2P PRT . . . B 2 48.855 52.379 46.114 1 71.56 ? O2P PRT 500 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #