data_1JUT # _model_server_result.job_id gpQEI-Elcd8bh5pGnEnhvg _model_server_result.datetime_utc '2024-11-23 08:41:01' _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 1jut # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 1JUT # _exptl.entry_id 1JUT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 397.428 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-3-METHYL-BUTYRIC ACID' _entity.pdbx_number_of_molecules 2 _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 1JUT _cell.length_a 125.8 _cell.length_b 125.8 _cell.length_c 67.063 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1JUT _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N 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 A C CXM 1 A CXM 1 1_555 A N LYS 2 A LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale2 A SG CYS 146 A CYS 146 1_555 C C6 UMP . A UMP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.595 ? covale ? covale3 B C CXM 1 B CXM 1 1_555 B N LYS 2 B LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? # _chem_comp.formula 'C20 H23 N5 O4' _chem_comp.formula_weight 397.428 _chem_comp.id LYD _chem_comp.mon_nstd_flag . _chem_comp.name '2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-3-METHYL-BUTYRIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms LY338529 # 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 C5' C4' LYD doub 216 n y C5' C6' LYD sing 217 n y C5' H5' LYD sing 218 n n C4' C3' LYD sing 219 n y C4' C8 LYD sing 220 n n C3' C2' LYD doub 221 n y C3' H3' LYD sing 222 n n C2' C1' LYD sing 223 n y C2' H2' LYD sing 224 n n C1' C6' LYD doub 225 n y C1' C9 LYD sing 226 n n C6' H6' LYD sing 227 n n C9 O9 LYD doub 228 n n C9 N LYD sing 229 n n N CA LYD sing 230 n n N HN LYD sing 231 n n CA CB LYD sing 232 n n CA C LYD sing 233 n n CA HCA LYD sing 234 n n CB CG1 LYD sing 235 n n CB CG2 LYD sing 236 n n CB HCB LYD sing 237 n n CG1 HG11 LYD sing 238 n n CG1 HG12 LYD sing 239 n n CG1 HG13 LYD sing 240 n n CG2 HG21 LYD sing 241 n n CG2 HG22 LYD sing 242 n n CG2 HG23 LYD sing 243 n n C8 C7 LYD sing 244 n n C8 HC81 LYD sing 245 n n C8 HC82 LYD sing 246 n n C7 C5 LYD sing 247 n n C7 HC71 LYD sing 248 n n C7 HC72 LYD sing 249 n n C5 C6 LYD doub 250 n y C5 C4A LYD sing 251 n y C OX1 LYD doub 252 n n C OX2 LYD sing 253 n n OX2 HX2 LYD sing 254 n n C6 N7 LYD sing 255 n y C6 HC6 LYD sing 256 n n N7 C7A LYD sing 257 n y N7 HN7 LYD sing 258 n n C7A C4A LYD doub 259 n y C7A N1 LYD sing 260 n y C4A C4 LYD sing 261 n y C4 O4 LYD doub 262 n n C4 N3 LYD sing 263 n y N3 C2 LYD sing 264 n y N3 HN3 LYD sing 265 n n C2 N1 LYD doub 266 n y C2 N2 LYD sing 267 n n N2 HN21 LYD sing 268 n n N2 HN22 LYD sing 269 n n # _atom_sites.entry_id 1JUT _atom_sites.fract_transf_matrix[1][1] 0.007949 _atom_sites.fract_transf_matrix[1][2] 0.004589 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009179 _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] 0.014911 _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 2 UMP A 1 302 302 UMP UMP . D 3 LYD A 1 303 303 LYD LYC . E 2 UMP B 1 304 304 UMP UMP . F 3 LYD B 1 305 305 LYD LYC . G 4 HOH A 1 406 406 HOH WAT . G 4 HOH A 2 409 409 HOH WAT . G 4 HOH A 3 410 410 HOH WAT . G 4 HOH A 4 413 413 HOH WAT . G 4 HOH A 5 415 415 HOH WAT . G 4 HOH A 6 417 417 HOH WAT . G 4 HOH A 7 418 418 HOH WAT . G 4 HOH A 8 419 419 HOH WAT . G 4 HOH A 9 422 422 HOH WAT . G 4 HOH A 10 423 423 HOH WAT . G 4 HOH A 11 425 425 HOH WAT . G 4 HOH A 12 426 426 HOH WAT . G 4 HOH A 13 428 428 HOH WAT . G 4 HOH A 14 429 429 HOH WAT . G 4 HOH A 15 430 430 HOH WAT . G 4 HOH A 16 431 431 HOH WAT . G 4 HOH A 17 432 432 HOH WAT . G 4 HOH A 18 433 433 HOH WAT . G 4 HOH A 19 434 434 HOH WAT . G 4 HOH A 20 435 435 HOH WAT . G 4 HOH A 21 436 436 HOH WAT . G 4 HOH A 22 437 437 HOH WAT . G 4 HOH A 23 438 438 HOH WAT . G 4 HOH A 24 439 439 HOH WAT . G 4 HOH A 25 440 440 HOH WAT . G 4 HOH A 26 441 441 HOH WAT . G 4 HOH A 27 442 442 HOH WAT . G 4 HOH A 28 443 443 HOH WAT . G 4 HOH A 29 444 444 HOH WAT . G 4 HOH A 30 445 445 HOH WAT . G 4 HOH A 31 446 446 HOH WAT . G 4 HOH A 32 447 447 HOH WAT . G 4 HOH A 33 448 448 HOH WAT . G 4 HOH A 34 449 449 HOH WAT . G 4 HOH A 35 450 450 HOH WAT . G 4 HOH A 36 451 451 HOH WAT . G 4 HOH A 37 452 452 HOH WAT . G 4 HOH A 38 453 453 HOH WAT . G 4 HOH A 39 454 454 HOH WAT . G 4 HOH A 40 455 455 HOH WAT . G 4 HOH A 41 456 456 HOH WAT . G 4 HOH A 42 457 457 HOH WAT . G 4 HOH A 43 458 458 HOH WAT . G 4 HOH A 44 464 464 HOH WAT . G 4 HOH A 45 473 473 HOH WAT . G 4 HOH A 46 474 474 HOH WAT . G 4 HOH A 47 475 475 HOH WAT . G 4 HOH A 48 477 477 HOH WAT . G 4 HOH A 49 480 480 HOH WAT . H 4 HOH B 1 401 401 HOH WAT . H 4 HOH B 2 402 402 HOH WAT . H 4 HOH B 3 403 403 HOH WAT . H 4 HOH B 4 404 404 HOH WAT . H 4 HOH B 5 405 405 HOH WAT . H 4 HOH B 6 407 407 HOH WAT . H 4 HOH B 7 408 408 HOH WAT . H 4 HOH B 8 411 411 HOH WAT . H 4 HOH B 9 412 412 HOH WAT . H 4 HOH B 10 414 414 HOH WAT . H 4 HOH B 11 416 416 HOH WAT . H 4 HOH B 12 420 420 HOH WAT . H 4 HOH B 13 421 421 HOH WAT . H 4 HOH B 14 424 424 HOH WAT . H 4 HOH B 15 427 427 HOH WAT . H 4 HOH B 16 459 459 HOH WAT . H 4 HOH B 17 460 460 HOH WAT . H 4 HOH B 18 461 461 HOH WAT . H 4 HOH B 19 462 462 HOH WAT . H 4 HOH B 20 463 463 HOH WAT . H 4 HOH B 21 465 465 HOH WAT . H 4 HOH B 22 466 466 HOH WAT . H 4 HOH B 23 467 467 HOH WAT . H 4 HOH B 24 468 468 HOH WAT . H 4 HOH B 25 469 469 HOH WAT . H 4 HOH B 26 470 470 HOH WAT . H 4 HOH B 27 471 471 HOH WAT . H 4 HOH B 28 472 472 HOH WAT . H 4 HOH B 29 476 476 HOH WAT . H 4 HOH B 30 478 478 HOH WAT . H 4 HOH B 31 479 479 HOH WAT . H 4 HOH B 32 481 481 HOH WAT . H 4 HOH B 33 482 482 HOH WAT . # 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 C C5' LYD . . . D 3 16.271 14.14 34.844 1 42.03 ? C5' LYD 303 A 1 HETATM 2 C C4' LYD . . . D 3 15.979 13.96 33.475 1 41.92 ? C4' LYD 303 A 1 HETATM 3 C C3' LYD . . . D 3 14.672 13.652 33.082 1 41.13 ? C3' LYD 303 A 1 HETATM 4 C C2' LYD . . . D 3 13.681 13.513 34.062 1 41.85 ? C2' LYD 303 A 1 HETATM 5 C C1' LYD . . . D 3 13.966 13.674 35.438 1 41.31 ? C1' LYD 303 A 1 HETATM 6 C C6' LYD . . . D 3 15.272 13.998 35.82 1 41.25 ? C6' LYD 303 A 1 HETATM 7 C C9 LYD . . . D 3 12.947 13.31 36.447 1 41.08 ? C9 LYD 303 A 1 HETATM 8 O O9 LYD . . . D 3 11.744 13.13 36.177 1 40.47 ? O9 LYD 303 A 1 HETATM 9 N N LYD . . . D 3 13.4 13.13 37.729 1 40.7 ? N LYD 303 A 1 HETATM 10 C CA LYD . . . D 3 12.517 12.701 38.843 1 41 ? CA LYD 303 A 1 HETATM 11 C CB LYD . . . D 3 12.555 11.173 39.013 1 40.98 ? CB LYD 303 A 1 HETATM 12 C CG1 LYD . . . D 3 12.131 10.513 37.711 1 40.53 ? CG1 LYD 303 A 1 HETATM 13 C CG2 LYD . . . D 3 11.664 10.663 40.17 1 41.6 ? CG2 LYD 303 A 1 HETATM 14 C C8 LYD . . . D 3 17.085 14.1 32.432 1 41.26 ? C8 LYD 303 A 1 HETATM 15 C C7 LYD . . . D 3 17.186 15.534 31.867 1 41.58 ? C7 LYD 303 A 1 HETATM 16 C C5 LYD . . . D 3 15.895 15.959 31.192 1 42.41 ? C5 LYD 303 A 1 HETATM 17 C C LYD . . . D 3 12.929 13.375 40.123 1 41.42 ? C LYD 303 A 1 HETATM 18 O OX1 LYD . . . D 3 14.128 13.709 40.186 1 41.54 ? OX1 LYD 303 A 1 HETATM 19 O OX2 LYD . . . D 3 12.091 13.504 41.034 1 40.61 ? OX2 LYD 303 A 1 HETATM 20 C C6 LYD . . . D 3 15.461 15.432 30.002 1 41.64 ? C6 LYD 303 A 1 HETATM 21 N N7 LYD . . . D 3 14.346 16.166 29.555 1 41.37 ? N7 LYD 303 A 1 HETATM 22 C C7A LYD . . . D 3 14.115 17.165 30.48 1 41.72 ? C7A LYD 303 A 1 HETATM 23 C C4A LYD . . . D 3 15.016 17.052 31.523 1 42.09 ? C4A LYD 303 A 1 HETATM 24 C C4 LYD . . . D 3 14.964 17.984 32.619 1 41.96 ? C4 LYD 303 A 1 HETATM 25 O O4 LYD . . . D 3 15.745 18.052 33.587 1 42.3 ? O4 LYD 303 A 1 HETATM 26 N N3 LYD . . . D 3 13.947 18.976 32.533 1 42.15 ? N3 LYD 303 A 1 HETATM 27 C C2 LYD . . . D 3 12.975 19.019 31.505 1 42.66 ? C2 LYD 303 A 1 HETATM 28 N N1 LYD . . . D 3 13.095 18.144 30.424 1 42.21 ? N1 LYD 303 A 1 HETATM 29 N N2 LYD . . . D 3 11.876 19.855 31.636 1 41.73 ? N2 LYD 303 A 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 29 #