data_6TCX # _model_server_result.job_id 5AQUH2Ro3b-jVdifBXVweA _model_server_result.datetime_utc '2024-10-19 08:28:17' _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 6tcx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 6TCX # _exptl.entry_id 6TCX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 611.689 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{R})-2-[[(1~{S})-1-[(6~{S})-2-azanyl-1,4,5,6-tetrahydropyrimidin-6-yl]-2-[[(2~{S})-3-methyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanyl-3-phenyl-propan-2-yl]amino]butan-2-yl]amino]-2-oxidanylidene-ethyl]carbamoylamino]-3-(4-hydroxyphenyl)propanoic acid' _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 6TCX _cell.length_a 42.644 _cell.length_b 48.921 _cell.length_c 101.547 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TCX _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 disulf ? disulf1 A SG CYS 22 AAA CYS 22 1_555 A SG CYS 63 AAA CYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 56 AAA CYS 56 1_555 A SG CYS 95 AAA CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 A SG CYS 153 AAA CYS 153 1_555 A SG CYS 200 AAA CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? covale ? covale1 A SG CYS 25 AAA CYS 25 1_555 C C N1W . AAA N1W 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.6 ? # _chem_comp.formula 'C30 H41 N7 O7' _chem_comp.formula_weight 611.689 _chem_comp.id N1W _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{R})-2-[[(1~{S})-1-[(6~{S})-2-azanyl-1,4,5,6-tetrahydropyrimidin-6-yl]-2-[[(2~{S})-3-methyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanyl-3-phenyl-propan-2-yl]amino]butan-2-yl]amino]-2-oxidanylidene-ethyl]carbamoylamino]-3-(4-hydroxyphenyl)propanoic acid' _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 O C N1W sing 251 n n C C1 N1W sing 252 n n C1 C2 N1W sing 253 n n C1 N N1W sing 254 n n C2 C3 N1W sing 255 n n O1 C9 N1W doub 256 n n C4 C3 N1W doub 257 n y C4 C5 N1W sing 258 n y N C9 N1W sing 259 n n C3 C8 N1W sing 260 n y C9 C10 N1W sing 261 n n C5 C6 N1W doub 262 n y C28 C27 N1W sing 263 n n C8 C7 N1W doub 264 n y C10 C27 N1W sing 265 n n C10 N1 N1W sing 266 n n C27 C29 N1W sing 267 n n C6 C7 N1W sing 268 n y N1 C11 N1W sing 269 n n C24 C25 N1W sing 270 n n C24 C23 N1W sing 271 n n C25 N4 N1W sing 272 n n N4 C26 N1W doub 273 n n C11 C12 N1W sing 274 n n C11 O2 N1W doub 275 n n C23 C12 N1W sing 276 n n C23 N6 N1W sing 277 n n C12 N2 N1W sing 278 n n C26 N6 N1W sing 279 n n C26 N5 N1W sing 280 n n O3 C13 N1W doub 281 n n N2 C13 N1W sing 282 n n C13 N3 N1W sing 283 n n O6 C22 N1W doub 284 n n O4 C19 N1W sing 285 n n N3 C14 N1W sing 286 n n C14 C22 N1W sing 287 n n C14 C15 N1W sing 288 n n C20 C19 N1W doub 289 n y C20 C21 N1W sing 290 n y C19 C18 N1W sing 291 n y C22 O5 N1W sing 292 n n C21 C16 N1W doub 293 n y C18 C17 N1W doub 294 n y C16 C17 N1W sing 295 n y C16 C15 N1W sing 296 n n C8 H1 N1W sing 297 n n C5 H2 N1W sing 298 n n C6 H3 N1W sing 299 n n N1 H4 N1W sing 300 n n C2 H5 N1W sing 301 n n C2 H6 N1W sing 302 n n N2 H7 N1W sing 303 n n N3 H8 N1W sing 304 n n C4 H9 N1W sing 305 n n O5 H10 N1W sing 306 n n C14 H11 N1W sing 307 n n C15 H12 N1W sing 308 n n C15 H13 N1W sing 309 n n C21 H14 N1W sing 310 n n C20 H15 N1W sing 311 n n O4 H16 N1W sing 312 n n C18 H17 N1W sing 313 n n C17 H18 N1W sing 314 n n C12 H19 N1W sing 315 n n C23 H20 N1W sing 316 n n N6 H21 N1W sing 317 n n N5 H22 N1W sing 318 n n N5 H23 N1W sing 319 n n C25 H24 N1W sing 320 n n C25 H25 N1W sing 321 n n C24 H26 N1W sing 322 n n C24 H27 N1W sing 323 n n C10 H28 N1W sing 324 n n C27 H29 N1W sing 325 n n C29 H30 N1W sing 326 n n C29 H31 N1W sing 327 n n C29 H32 N1W sing 328 n n C28 H33 N1W sing 329 n n C28 H34 N1W sing 330 n n C28 H35 N1W sing 331 n n N H36 N1W sing 332 n n C1 H37 N1W sing 333 n n C H38 N1W sing 334 n n C H39 N1W sing 335 n n O H40 N1W sing 336 n n C7 H41 N1W sing 337 n n # _atom_sites.entry_id 6TCX _atom_sites.fract_transf_matrix[1][1] 0.02345 _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] 0.020441 _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] 0.009848 _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 EPE AAA 1 301 1 EPE EPE . C 3 N1W AAA 1 302 1 N1W AC2 . D 4 HOH AAA 1 401 49 HOH HOH . D 4 HOH AAA 2 402 72 HOH HOH . D 4 HOH AAA 3 403 88 HOH HOH . D 4 HOH AAA 4 404 82 HOH HOH . D 4 HOH AAA 5 405 53 HOH HOH . D 4 HOH AAA 6 406 58 HOH HOH . D 4 HOH AAA 7 407 63 HOH HOH . D 4 HOH AAA 8 408 22 HOH HOH . D 4 HOH AAA 9 409 48 HOH HOH . D 4 HOH AAA 10 410 61 HOH HOH . D 4 HOH AAA 11 411 55 HOH HOH . D 4 HOH AAA 12 412 69 HOH HOH . D 4 HOH AAA 13 413 78 HOH HOH . D 4 HOH AAA 14 414 41 HOH HOH . D 4 HOH AAA 15 415 105 HOH HOH . D 4 HOH AAA 16 416 36 HOH HOH . D 4 HOH AAA 17 417 30 HOH HOH . D 4 HOH AAA 18 418 26 HOH HOH . D 4 HOH AAA 19 419 31 HOH HOH . D 4 HOH AAA 20 420 47 HOH HOH . D 4 HOH AAA 21 421 18 HOH HOH . D 4 HOH AAA 22 422 84 HOH HOH . D 4 HOH AAA 23 423 13 HOH HOH . D 4 HOH AAA 24 424 83 HOH HOH . D 4 HOH AAA 25 425 11 HOH HOH . D 4 HOH AAA 26 426 42 HOH HOH . D 4 HOH AAA 27 427 92 HOH HOH . D 4 HOH AAA 28 428 29 HOH HOH . D 4 HOH AAA 29 429 8 HOH HOH . D 4 HOH AAA 30 430 35 HOH HOH . D 4 HOH AAA 31 431 100 HOH HOH . D 4 HOH AAA 32 432 17 HOH HOH . D 4 HOH AAA 33 433 66 HOH HOH . D 4 HOH AAA 34 434 45 HOH HOH . D 4 HOH AAA 35 435 50 HOH HOH . D 4 HOH AAA 36 436 71 HOH HOH . D 4 HOH AAA 37 437 4 HOH HOH . D 4 HOH AAA 38 438 23 HOH HOH . D 4 HOH AAA 39 439 102 HOH HOH . D 4 HOH AAA 40 440 64 HOH HOH . D 4 HOH AAA 41 441 40 HOH HOH . D 4 HOH AAA 42 442 93 HOH HOH . D 4 HOH AAA 43 443 16 HOH HOH . D 4 HOH AAA 44 444 27 HOH HOH . D 4 HOH AAA 45 445 25 HOH HOH . D 4 HOH AAA 46 446 12 HOH HOH . D 4 HOH AAA 47 447 81 HOH HOH . D 4 HOH AAA 48 448 6 HOH HOH . D 4 HOH AAA 49 449 43 HOH HOH . D 4 HOH AAA 50 450 70 HOH HOH . D 4 HOH AAA 51 451 77 HOH HOH . D 4 HOH AAA 52 452 54 HOH HOH . D 4 HOH AAA 53 453 19 HOH HOH . D 4 HOH AAA 54 454 15 HOH HOH . D 4 HOH AAA 55 455 98 HOH HOH . D 4 HOH AAA 56 456 7 HOH HOH . D 4 HOH AAA 57 457 39 HOH HOH . D 4 HOH AAA 58 458 52 HOH HOH . D 4 HOH AAA 59 459 10 HOH HOH . D 4 HOH AAA 60 460 38 HOH HOH . D 4 HOH AAA 61 461 37 HOH HOH . D 4 HOH AAA 62 462 2 HOH HOH . D 4 HOH AAA 63 463 65 HOH HOH . D 4 HOH AAA 64 464 80 HOH HOH . D 4 HOH AAA 65 465 5 HOH HOH . D 4 HOH AAA 66 466 74 HOH HOH . D 4 HOH AAA 67 467 106 HOH HOH . D 4 HOH AAA 68 468 20 HOH HOH . D 4 HOH AAA 69 469 24 HOH HOH . D 4 HOH AAA 70 470 59 HOH HOH . D 4 HOH AAA 71 471 9 HOH HOH . D 4 HOH AAA 72 472 51 HOH HOH . D 4 HOH AAA 73 473 79 HOH HOH . D 4 HOH AAA 74 474 97 HOH HOH . D 4 HOH AAA 75 475 44 HOH HOH . D 4 HOH AAA 76 476 57 HOH HOH . D 4 HOH AAA 77 477 107 HOH HOH . D 4 HOH AAA 78 478 60 HOH HOH . D 4 HOH AAA 79 479 62 HOH HOH . D 4 HOH AAA 80 480 68 HOH HOH . D 4 HOH AAA 81 481 28 HOH HOH . D 4 HOH AAA 82 482 96 HOH HOH . D 4 HOH AAA 83 483 73 HOH HOH . D 4 HOH AAA 84 484 101 HOH HOH . D 4 HOH AAA 85 485 32 HOH HOH . D 4 HOH AAA 86 486 21 HOH HOH . D 4 HOH AAA 87 487 95 HOH HOH . D 4 HOH AAA 88 488 86 HOH HOH . D 4 HOH AAA 89 489 14 HOH HOH . D 4 HOH AAA 90 490 67 HOH HOH . D 4 HOH AAA 91 491 34 HOH HOH . D 4 HOH AAA 92 492 1 HOH HOH . D 4 HOH AAA 93 493 33 HOH HOH . D 4 HOH AAA 94 494 56 HOH HOH . D 4 HOH AAA 95 495 76 HOH HOH . D 4 HOH AAA 96 496 94 HOH HOH . D 4 HOH AAA 97 497 85 HOH HOH . D 4 HOH AAA 98 498 46 HOH HOH . D 4 HOH AAA 99 499 75 HOH HOH . D 4 HOH AAA 100 500 99 HOH HOH . D 4 HOH AAA 101 501 103 HOH HOH . D 4 HOH AAA 102 502 104 HOH HOH . D 4 HOH AAA 103 503 89 HOH HOH . D 4 HOH AAA 104 504 91 HOH HOH . D 4 HOH AAA 105 505 3 HOH HOH . D 4 HOH AAA 106 506 90 HOH HOH . D 4 HOH AAA 107 507 87 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 C C8 N1W . . . C 3 20.997 -14.506 20.302 1 46.16 ? C8 N1W 302 AAA 1 HETATM 2 C C5 N1W . . . C 3 23.325 -15.689 19.41 1 47.63 ? C5 N1W 302 AAA 1 HETATM 3 C C6 N1W . . . C 3 23.197 -15.354 20.742 1 47.73 ? C6 N1W 302 AAA 1 HETATM 4 O O6 N1W . . . C 3 21.8 -3.531 24.672 1 74.57 ? O6 N1W 302 AAA 1 HETATM 5 N N1 N1W . . . C 3 21.402 -9.96 21.032 1 46.13 ? N1 N1W 302 AAA 1 HETATM 6 C C2 N1W . . . C 3 19.996 -14.537 17.985 1 40.78 ? C2 N1W 302 AAA 1 HETATM 7 N N2 N1W . . . C 3 22.774 -8.542 23.981 1 59.57 ? N2 N1W 302 AAA 1 HETATM 8 N N3 N1W . . . C 3 22.158 -6.802 25.323 1 68.52 ? N3 N1W 302 AAA 1 HETATM 9 C C4 N1W . . . C 3 22.293 -15.43 18.521 1 46.44 ? C4 N1W 302 AAA 1 HETATM 10 C C22 N1W . . . C 3 21.923 -4.366 25.546 1 74.79 ? C22 N1W 302 AAA 1 HETATM 11 O O5 N1W . . . C 3 21.263 -4.355 26.676 1 76.48 ? O5 N1W 302 AAA 1 HETATM 12 C C14 N1W . . . C 3 22.878 -5.542 25.419 1 72.88 ? C14 N1W 302 AAA 1 HETATM 13 C C15 N1W . . . C 3 23.877 -5.559 26.589 1 74.54 ? C15 N1W 302 AAA 1 HETATM 14 C C16 N1W . . . C 3 25.226 -4.99 26.224 1 76.42 ? C16 N1W 302 AAA 1 HETATM 15 C C21 N1W . . . C 3 25.354 -3.668 25.818 1 77.34 ? C21 N1W 302 AAA 1 HETATM 16 C C20 N1W . . . C 3 26.581 -3.153 25.437 1 78.31 ? C20 N1W 302 AAA 1 HETATM 17 C C19 N1W . . . C 3 27.708 -3.961 25.46 1 78.64 ? C19 N1W 302 AAA 1 HETATM 18 O O4 N1W . . . C 3 28.917 -3.465 25.069 1 79.59 ? O4 N1W 302 AAA 1 HETATM 19 C C18 N1W . . . C 3 27.598 -5.281 25.874 1 78.44 ? C18 N1W 302 AAA 1 HETATM 20 C C17 N1W . . . C 3 26.365 -5.784 26.252 1 77.53 ? C17 N1W 302 AAA 1 HETATM 21 C C13 N1W . . . C 3 22.003 -7.435 24.135 1 64.11 ? C13 N1W 302 AAA 1 HETATM 22 O O3 N1W . . . C 3 21.229 -7.035 23.268 1 64.32 ? O3 N1W 302 AAA 1 HETATM 23 C C12 N1W . . . C 3 23.003 -9.154 22.68 1 55.95 ? C12 N1W 302 AAA 1 HETATM 24 C C23 N1W . . . C 3 24.32 -9.952 22.644 1 56.74 ? C23 N1W 302 AAA 1 HETATM 25 N N6 N1W . . . C 3 24.154 -11.227 23.351 1 56.65 ? N6 N1W 302 AAA 1 HETATM 26 C C26 N1W . . . C 3 24.809 -12.364 23.047 1 57.44 ? C26 N1W 302 AAA 1 HETATM 27 N N5 N1W . . . C 3 24.52 -13.386 23.775 1 58.91 ? N5 N1W 302 AAA 1 HETATM 28 N N4 N1W . . . C 3 25.693 -12.355 22.035 1 57.24 ? N4 N1W 302 AAA 1 HETATM 29 C C25 N1W . . . C 3 25.995 -11.169 21.243 1 57 ? C25 N1W 302 AAA 1 HETATM 30 C C24 N1W . . . C 3 24.803 -10.233 21.222 1 56.85 ? C24 N1W 302 AAA 1 HETATM 31 C C11 N1W . . . C 3 21.838 -10.064 22.293 1 51.69 ? C11 N1W 302 AAA 1 HETATM 32 O O2 N1W . . . C 3 21.363 -10.849 23.108 1 50.75 ? O2 N1W 302 AAA 1 HETATM 33 C C10 N1W . . . C 3 20.206 -10.635 20.554 1 42.44 ? C10 N1W 302 AAA 1 HETATM 34 C C27 N1W . . . C 3 18.976 -9.706 20.579 1 41.13 ? C27 N1W 302 AAA 1 HETATM 35 C C29 N1W . . . C 3 18.615 -9.282 21.998 1 40.31 ? C29 N1W 302 AAA 1 HETATM 36 C C28 N1W . . . C 3 19.173 -8.486 19.688 1 40.6 ? C28 N1W 302 AAA 1 HETATM 37 C C9 N1W . . . C 3 20.44 -11.202 19.154 1 39.99 ? C9 N1W 302 AAA 1 HETATM 38 O O1 N1W . . . C 3 21.282 -10.706 18.412 1 36.57 ? O1 N1W 302 AAA 1 HETATM 39 N N N1W . . . C 3 19.672 -12.241 18.804 1 39.17 ? N N1W 302 AAA 1 HETATM 40 C C1 N1W . . . C 3 19.884 -13.054 17.607 1 38.17 ? C1 N1W 302 AAA 1 HETATM 41 C C N1W . . . C 3 18.743 -12.787 16.64 1 34.74 ? C N1W 302 AAA 1 HETATM 42 O O N1W . . . C 3 18.94 -13.402 15.377 1 32.02 ? O N1W 302 AAA 1 HETATM 43 C C3 N1W . . . C 3 21.115 -14.832 18.955 1 44.27 ? C3 N1W 302 AAA 1 HETATM 44 C C7 N1W . . . C 3 22.032 -14.762 21.188 1 47.25 ? C7 N1W 302 AAA 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #