data_4PY6 # _model_server_result.job_id MtxcMZ1refIM8kbslm1jeA _model_server_result.datetime_utc '2024-11-05 01:21:02' _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 4py6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1401}' # _entry.id 4PY6 # _exptl.entry_id 4PY6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 521.654 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide _entity.pdbx_number_of_molecules 4 _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 4PY6 _cell.length_a 74.324 _cell.length_b 84.269 _cell.length_c 219.724 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PY6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,J,L,N 1 1 B,D,G,H,I,K,M,O 2 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 ? 2 E N N ? 2 G N N ? 2 J N N ? 2 K N N # _chem_comp.formula 'C28 H39 N7 O3' _chem_comp.formula_weight 521.654 _chem_comp.id R78 _chem_comp.mon_nstd_flag . _chem_comp.name 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide _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 N1 C4 R78 doub 286 n y N1 C1 R78 sing 287 n y N3 C5 R78 sing 288 n n N3 C8 R78 sing 289 n n N3 C2 R78 sing 290 n n C4 C3 R78 sing 291 n y C5 C6 R78 sing 292 n n C5 C9 R78 sing 293 n n C6 O1 R78 doub 294 n n C6 N4 R78 sing 295 n n C7 C20 R78 doub 296 n y C7 C16 R78 sing 297 n y C7 N5 R78 sing 298 n n C8 C15 R78 sing 299 n n C8 C12 R78 sing 300 n n C10 C9 R78 sing 301 n n C13 C14 R78 sing 302 n n C13 C12 R78 sing 303 n n C15 C14 R78 sing 304 n n C17 C18 R78 sing 305 n y C17 C16 R78 doub 306 n y C20 C19 R78 sing 307 n y C21 O2 R78 doub 308 n n C21 N6 R78 sing 309 n n C21 C18 R78 sing 310 n n C22 N6 R78 sing 311 n n C22 C29 R78 sing 312 n n C22 C23 R78 sing 313 n n C24 N7 R78 sing 314 n n C24 C23 R78 sing 315 n n C28 C29 R78 sing 316 n n C28 N7 R78 sing 317 n n N7 C30 R78 sing 318 n n C18 C19 R78 doub 319 n y C16 O3 R78 sing 320 n n O3 C31 R78 sing 321 n n N5 C1 R78 sing 322 n n C1 N2 R78 doub 323 n y N2 C2 R78 sing 324 n y C2 C3 R78 doub 325 n y N4 C11 R78 sing 326 n n N4 C3 R78 sing 327 n n C4 H4 R78 sing 328 n n C5 H5 R78 sing 329 n n C8 H8 R78 sing 330 n n C10 H10 R78 sing 331 n n C10 H10A R78 sing 332 n n C10 H10B R78 sing 333 n n C13 H13 R78 sing 334 n n C13 H13A R78 sing 335 n n C15 H15 R78 sing 336 n n C15 H15A R78 sing 337 n n C17 H17 R78 sing 338 n n C20 H20 R78 sing 339 n n C22 H22 R78 sing 340 n n C24 H24 R78 sing 341 n n C24 H24A R78 sing 342 n n C28 H28 R78 sing 343 n n C28 H28A R78 sing 344 n n N6 HN6 R78 sing 345 n n C29 H29 R78 sing 346 n n C29 H29A R78 sing 347 n n C30 H30 R78 sing 348 n n C30 H30A R78 sing 349 n n C30 H30B R78 sing 350 n n C23 H23 R78 sing 351 n n C23 H23A R78 sing 352 n n C31 H31 R78 sing 353 n n C31 H31A R78 sing 354 n n C31 H31B R78 sing 355 n n C19 H19 R78 sing 356 n n N5 HN5 R78 sing 357 n n C14 H14 R78 sing 358 n n C14 H14A R78 sing 359 n n C12 H12 R78 sing 360 n n C12 H12A R78 sing 361 n n C9 H9 R78 sing 362 n n C9 H9A R78 sing 363 n n C11 H11 R78 sing 364 n n C11 H11A R78 sing 365 n n C11 H11B R78 sing 366 n n # _atom_sites.entry_id 4PY6 _atom_sites.fract_transf_matrix[1][1] 0.013455 _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] 0.011867 _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] 0.004551 _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 E 2 R78 A 1 1401 4 R78 DRG . F 3 EDO A 1 1402 3 EDO EDO . G 2 R78 B 1 1401 1 R78 DRG . H 3 EDO B 1 1402 1 EDO EDO . I 3 EDO B 1 1403 2 EDO EDO . J 2 R78 C 1 1401 2 R78 DRG . K 2 R78 D 1 1401 3 R78 DRG . L 4 HOH A 1 1501 1 HOH HOH . L 4 HOH A 2 1502 3 HOH HOH . L 4 HOH A 3 1503 4 HOH HOH . L 4 HOH A 4 1504 5 HOH HOH . L 4 HOH A 5 1505 6 HOH HOH . L 4 HOH A 6 1506 10 HOH HOH . L 4 HOH A 7 1507 11 HOH HOH . L 4 HOH A 8 1508 12 HOH HOH . L 4 HOH A 9 1509 13 HOH HOH . L 4 HOH A 10 1510 17 HOH HOH . L 4 HOH A 11 1511 21 HOH HOH . L 4 HOH A 12 1512 25 HOH HOH . L 4 HOH A 13 1513 26 HOH HOH . L 4 HOH A 14 1514 27 HOH HOH . L 4 HOH A 15 1515 30 HOH HOH . L 4 HOH A 16 1516 32 HOH HOH . L 4 HOH A 17 1517 33 HOH HOH . L 4 HOH A 18 1518 43 HOH HOH . L 4 HOH A 19 1519 60 HOH HOH . L 4 HOH A 20 1520 65 HOH HOH . L 4 HOH A 21 1521 67 HOH HOH . L 4 HOH A 22 1522 69 HOH HOH . L 4 HOH A 23 1523 75 HOH HOH . L 4 HOH A 24 1524 78 HOH HOH . L 4 HOH A 25 1525 79 HOH HOH . L 4 HOH A 26 1526 83 HOH HOH . L 4 HOH A 27 1527 84 HOH HOH . L 4 HOH A 28 1528 86 HOH HOH . L 4 HOH A 29 1529 87 HOH HOH . L 4 HOH A 30 1530 88 HOH HOH . L 4 HOH A 31 1531 108 HOH HOH . L 4 HOH A 32 1532 117 HOH HOH . L 4 HOH A 33 1533 119 HOH HOH . L 4 HOH A 34 1534 124 HOH HOH . L 4 HOH A 35 1535 126 HOH HOH . L 4 HOH A 36 1536 128 HOH HOH . L 4 HOH A 37 1537 130 HOH HOH . L 4 HOH A 38 1538 135 HOH HOH . L 4 HOH A 39 1539 142 HOH HOH . L 4 HOH A 40 1540 144 HOH HOH . L 4 HOH A 41 1541 146 HOH HOH . L 4 HOH A 42 1542 154 HOH HOH . L 4 HOH A 43 1543 155 HOH HOH . L 4 HOH A 44 1544 157 HOH HOH . L 4 HOH A 45 1545 158 HOH HOH . L 4 HOH A 46 1546 161 HOH HOH . M 4 HOH B 1 1501 15 HOH HOH . M 4 HOH B 2 1502 16 HOH HOH . M 4 HOH B 3 1503 29 HOH HOH . M 4 HOH B 4 1504 40 HOH HOH . M 4 HOH B 5 1505 44 HOH HOH . M 4 HOH B 6 1506 45 HOH HOH . M 4 HOH B 7 1507 46 HOH HOH . M 4 HOH B 8 1508 51 HOH HOH . M 4 HOH B 9 1509 58 HOH HOH . M 4 HOH B 10 1510 68 HOH HOH . M 4 HOH B 11 1511 70 HOH HOH . M 4 HOH B 12 1512 71 HOH HOH . M 4 HOH B 13 1513 72 HOH HOH . M 4 HOH B 14 1514 73 HOH HOH . M 4 HOH B 15 1515 76 HOH HOH . M 4 HOH B 16 1516 77 HOH HOH . M 4 HOH B 17 1517 80 HOH HOH . M 4 HOH B 18 1518 81 HOH HOH . M 4 HOH B 19 1519 82 HOH HOH . M 4 HOH B 20 1520 90 HOH HOH . M 4 HOH B 21 1521 92 HOH HOH . M 4 HOH B 22 1522 93 HOH HOH . M 4 HOH B 23 1523 94 HOH HOH . M 4 HOH B 24 1524 95 HOH HOH . M 4 HOH B 25 1525 96 HOH HOH . M 4 HOH B 26 1526 97 HOH HOH . M 4 HOH B 27 1527 98 HOH HOH . M 4 HOH B 28 1528 99 HOH HOH . M 4 HOH B 29 1529 109 HOH HOH . M 4 HOH B 30 1530 116 HOH HOH . M 4 HOH B 31 1531 118 HOH HOH . M 4 HOH B 32 1532 134 HOH HOH . M 4 HOH B 33 1533 136 HOH HOH . M 4 HOH B 34 1534 143 HOH HOH . M 4 HOH B 35 1535 147 HOH HOH . M 4 HOH B 36 1536 148 HOH HOH . M 4 HOH B 37 1537 156 HOH HOH . M 4 HOH B 38 1538 159 HOH HOH . M 4 HOH B 39 1539 162 HOH HOH . M 4 HOH B 40 1540 163 HOH HOH . N 4 HOH C 1 1501 18 HOH HOH . N 4 HOH C 2 1502 53 HOH HOH . N 4 HOH C 3 1503 54 HOH HOH . N 4 HOH C 4 1504 55 HOH HOH . N 4 HOH C 5 1505 61 HOH HOH . N 4 HOH C 6 1506 62 HOH HOH . N 4 HOH C 7 1507 63 HOH HOH . N 4 HOH C 8 1508 64 HOH HOH . N 4 HOH C 9 1509 85 HOH HOH . N 4 HOH C 10 1510 100 HOH HOH . N 4 HOH C 11 1511 101 HOH HOH . N 4 HOH C 12 1512 102 HOH HOH . N 4 HOH C 13 1513 103 HOH HOH . N 4 HOH C 14 1514 112 HOH HOH . N 4 HOH C 15 1515 113 HOH HOH . N 4 HOH C 16 1516 115 HOH HOH . N 4 HOH C 17 1517 120 HOH HOH . N 4 HOH C 18 1518 121 HOH HOH . N 4 HOH C 19 1519 122 HOH HOH . N 4 HOH C 20 1520 125 HOH HOH . N 4 HOH C 21 1521 129 HOH HOH . N 4 HOH C 22 1522 140 HOH HOH . N 4 HOH C 23 1523 141 HOH HOH . N 4 HOH C 24 1524 149 HOH HOH . N 4 HOH C 25 1525 150 HOH HOH . N 4 HOH C 26 1526 151 HOH HOH . N 4 HOH C 27 1527 152 HOH HOH . N 4 HOH C 28 1528 153 HOH HOH . O 4 HOH D 1 1501 2 HOH HOH . O 4 HOH D 2 1502 48 HOH HOH . O 4 HOH D 3 1503 50 HOH HOH . O 4 HOH D 4 1504 57 HOH HOH . O 4 HOH D 5 1505 59 HOH HOH . O 4 HOH D 6 1506 104 HOH HOH . O 4 HOH D 7 1507 105 HOH HOH . O 4 HOH D 8 1508 106 HOH HOH . O 4 HOH D 9 1509 107 HOH HOH . O 4 HOH D 10 1510 110 HOH HOH . O 4 HOH D 11 1511 111 HOH HOH . O 4 HOH D 12 1512 114 HOH HOH . O 4 HOH D 13 1513 123 HOH HOH . O 4 HOH D 14 1514 131 HOH HOH . O 4 HOH D 15 1515 132 HOH HOH . O 4 HOH D 16 1516 137 HOH HOH . O 4 HOH D 17 1517 138 HOH HOH . O 4 HOH D 18 1518 139 HOH HOH . O 4 HOH D 19 1519 145 HOH HOH . O 4 HOH D 20 1520 160 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 N N1 R78 . . . G 2 -21.626 -42.468 -68.85 1 55.08 ? N1 R78 1401 B 1 HETATM 2 N N3 R78 . . . G 2 -18.012 -44.052 -69.988 1 53.4 ? N3 R78 1401 B 1 HETATM 3 C C4 R78 . . . G 2 -20.484 -41.638 -68.843 1 52.96 ? C4 R78 1401 B 1 HETATM 4 C C5 R78 . . . G 2 -16.742 -43.377 -69.518 1 50.85 ? C5 R78 1401 B 1 HETATM 5 C C6 R78 . . . G 2 -16.875 -41.978 -69.368 1 49.42 ? C6 R78 1401 B 1 HETATM 6 C C7 R78 . . . G 2 -22.707 -45.794 -69.641 1 61.17 ? C7 R78 1401 B 1 HETATM 7 C C8 R78 . . . G 2 -18.014 -45.276 -70.876 1 56.07 ? C8 R78 1401 B 1 HETATM 8 C C10 R78 . . . G 2 -16.875 -44.104 -67.052 1 50.76 ? C10 R78 1401 B 1 HETATM 9 C C13 R78 . . . G 2 -16.679 -46.771 -71.977 1 57.91 ? C13 R78 1401 B 1 HETATM 10 C C15 R78 . . . G 2 -17.934 -46.584 -70.113 1 56.96 ? C15 R78 1401 B 1 HETATM 11 C C17 R78 . . . G 2 -24.065 -47.506 -70.724 1 66.27 ? C17 R78 1401 B 1 HETATM 12 C C20 R78 . . . G 2 -21.715 -46.761 -69.399 1 61.08 ? C20 R78 1401 B 1 HETATM 13 C C21 R78 . . . G 2 -23.205 -49.746 -70.986 1 68.25 ? C21 R78 1401 B 1 HETATM 14 C C18 R78 . . . G 2 -23.044 -48.441 -70.53 1 65.99 ? C18 R78 1401 B 1 HETATM 15 C C16 R78 . . . G 2 -23.892 -46.179 -70.296 1 64.1 ? C16 R78 1401 B 1 HETATM 16 O O3 R78 . . . G 2 -24.871 -45.228 -70.43 1 64.58 ? O3 R78 1401 B 1 HETATM 17 C C31 R78 . . . G 2 -25.325 -45.021 -71.776 1 66.2 ? C31 R78 1401 B 1 HETATM 18 C C19 R78 . . . G 2 -21.867 -48.068 -69.872 1 63.37 ? C19 R78 1401 B 1 HETATM 19 N N5 R78 . . . G 2 -22.651 -44.517 -69.192 1 58.77 ? N5 R78 1401 B 1 HETATM 20 C C1 R78 . . . G 2 -21.533 -43.757 -69.233 1 56.51 ? C1 R78 1401 B 1 HETATM 21 N N2 R78 . . . G 2 -20.326 -44.243 -69.6 1 55.65 ? N2 R78 1401 B 1 HETATM 22 C C2 R78 . . . G 2 -19.195 -43.499 -69.628 1 53.6 ? C2 R78 1401 B 1 HETATM 23 C C14 R78 . . . G 2 -17.287 -47.445 -70.995 1 58.33 ? C14 R78 1401 B 1 HETATM 24 C C12 R78 . . . G 2 -16.859 -45.394 -71.848 1 56.34 ? C12 R78 1401 B 1 HETATM 25 C C9 R78 . . . G 2 -16.019 -44.047 -68.323 1 50.6 ? C9 R78 1401 B 1 HETATM 26 O O1 R78 . . . G 2 -15.861 -41.273 -69.395 1 48.11 ? O1 R78 1401 B 1 HETATM 27 N N4 R78 . . . G 2 -18.103 -41.395 -69.255 1 49.63 ? N4 R78 1401 B 1 HETATM 28 C C11 R78 . . . G 2 -18.185 -39.902 -69.149 1 47.66 ? C11 R78 1401 B 1 HETATM 29 C C3 R78 . . . G 2 -19.241 -42.149 -69.247 1 51.99 ? C3 R78 1401 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #