data_8R0V # _model_server_result.job_id 9DDlxdjpu1H0Dpj8DZRFTA _model_server_result.datetime_utc '2024-11-17 01:59:03' _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 8r0v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 8R0V # _exptl.entry_id 8R0V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 595.687 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '~{tert}-butyl ~{N}-[1-[(2~{S})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{R})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-2-oxidanylidene-pyridin-3-yl]carbamate' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 84.722 _cell.angle_beta 80.368 _cell.angle_gamma 78.391 _cell.entry_id 8R0V _cell.length_a 45.853 _cell.length_b 71.803 _cell.length_c 85.725 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8R0V _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # 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 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_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,G,I,K 1 1 B,D,F,H,J,L 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 F N N ? 2 G N N ? 2 H 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 SG CYS 145 C CYS 145 1_555 E C57 O6K . C O6K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.783 ? covale ? covale2 B SG CYS 145 B CYS 145 1_555 F C57 O6K . B O6K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.841 ? covale ? covale3 C SG CYS 145 D CYS 145 1_555 G C57 O6K . D O6K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.674 ? covale ? covale4 D SG CYS 145 A CYS 145 1_555 H C57 O6K . A O6K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? # _chem_comp.formula 'C31 H41 N5 O7' _chem_comp.formula_weight 595.687 _chem_comp.id O6K _chem_comp.mon_nstd_flag . _chem_comp.name '~{tert}-butyl ~{N}-[1-[(2~{S})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{R})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-2-oxidanylidene-pyridin-3-yl]carbamate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(S,S,S)-13b;13b-K;ketoamide inhibitor 13b (bound)' # 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 N49 C47 O6K sing 237 n n N49 C51 O6K sing 238 n n O48 C47 O6K doub 239 n n C47 C45 O6K sing 240 n n C51 C54 O6K sing 241 n n O41 C35 O6K doub 242 n n C54 C45 O6K sing 243 n n C45 C42 O6K sing 244 n n C42 C40 O6K sing 245 n n C23 C15 O6K doub 246 n y C23 C25 O6K sing 247 n y C15 C14 O6K sing 248 n y C25 C26 O6K doub 249 n y C35 N36 O6K sing 250 n n C35 C57 O6K sing 251 n n C14 C13 O6K sing 252 n n C14 C28 O6K doub 253 n y C13 N36 O6K sing 254 n n C26 C28 O6K sing 255 n y C40 C57 O6K sing 256 n n C40 N38 O6K sing 257 n n C57 O40 O6K sing 258 n n C32 C27 O6K sing 259 n n N38 C36 O6K sing 260 n n C33 C27 O6K sing 261 n n C27 O25 O6K sing 262 n n C27 C31 O6K sing 263 n n O25 C24 O6K sing 264 n n O37 C36 O6K doub 265 n n O22 C21 O6K doub 266 n n C36 C20 O6K sing 267 n n N23 C24 O6K sing 268 n n N23 C19 O6K sing 269 n n C24 O26 O6K doub 270 n n C21 C19 O6K sing 271 n n C21 N15 O6K sing 272 n n C20 N15 O6K sing 273 n n C20 C22 O6K sing 274 n n C19 C18 O6K doub 275 n n N15 C16 O6K sing 276 n n C22 C29 O6K sing 277 n n C18 C17 O6K sing 278 n n C16 C17 O6K doub 279 n n C30 C29 O6K sing 280 n n C30 C34 O6K sing 281 n n C29 C34 O6K sing 282 n n C31 H1 O6K sing 283 n n C31 H2 O6K sing 284 n n C31 H3 O6K sing 285 n n C32 H4 O6K sing 286 n n C32 H5 O6K sing 287 n n C32 H6 O6K sing 288 n n C33 H7 O6K sing 289 n n C33 H8 O6K sing 290 n n C33 H9 O6K sing 291 n n N23 H10 O6K sing 292 n n C18 H11 O6K sing 293 n n C17 H12 O6K sing 294 n n C16 H13 O6K sing 295 n n C20 H14 O6K sing 296 n n C22 H15 O6K sing 297 n n C22 H16 O6K sing 298 n n C29 H17 O6K sing 299 n n C34 H18 O6K sing 300 n n C34 H19 O6K sing 301 n n C30 H20 O6K sing 302 n n C30 H21 O6K sing 303 n n N38 H22 O6K sing 304 n n C40 H23 O6K sing 305 n n C42 H24 O6K sing 306 n n C42 H25 O6K sing 307 n n C45 H26 O6K sing 308 n n N49 H27 O6K sing 309 n n C51 H28 O6K sing 310 n n C51 H29 O6K sing 311 n n C54 H30 O6K sing 312 n n C54 H31 O6K sing 313 n n N36 H34 O6K sing 314 n n C13 H35 O6K sing 315 n n C13 H36 O6K sing 316 n n C28 H37 O6K sing 317 n n C26 H38 O6K sing 318 n n C25 H39 O6K sing 319 n n C23 H40 O6K sing 320 n n C15 H41 O6K sing 321 n n C57 H32 O6K sing 322 n n O40 H33 O6K sing 323 n n # _atom_sites.entry_id 8R0V _atom_sites.fract_transf_matrix[1][1] 0.021809 _atom_sites.fract_transf_matrix[1][2] -0.00448 _atom_sites.fract_transf_matrix[1][3] -0.003437 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014218 _atom_sites.fract_transf_matrix[2][3] -0.00086 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011854 _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 O6K C 1 401 402 O6K O6K . F 2 O6K B 1 401 402 O6K O6K . G 2 O6K D 1 401 401 O6K O6K . H 2 O6K A 1 401 401 O6K O6K . I 3 HOH C 1 501 36 HOH HOH . I 3 HOH C 2 502 40 HOH HOH . I 3 HOH C 3 503 49 HOH HOH . I 3 HOH C 4 504 9 HOH HOH . I 3 HOH C 5 505 10 HOH HOH . I 3 HOH C 6 506 13 HOH HOH . I 3 HOH C 7 507 31 HOH HOH . I 3 HOH C 8 508 32 HOH HOH . I 3 HOH C 9 509 29 HOH HOH . I 3 HOH C 10 510 57 HOH HOH . I 3 HOH C 11 511 38 HOH HOH . I 3 HOH C 12 512 43 HOH HOH . I 3 HOH C 13 513 19 HOH HOH . I 3 HOH C 14 514 37 HOH HOH . I 3 HOH C 15 515 66 HOH HOH . I 3 HOH C 16 516 65 HOH HOH . J 3 HOH B 1 501 5 HOH HOH . J 3 HOH B 2 502 12 HOH HOH . J 3 HOH B 3 503 67 HOH HOH . J 3 HOH B 4 504 3 HOH HOH . J 3 HOH B 5 505 25 HOH HOH . J 3 HOH B 6 506 42 HOH HOH . J 3 HOH B 7 507 44 HOH HOH . J 3 HOH B 8 508 28 HOH HOH . J 3 HOH B 9 509 22 HOH HOH . J 3 HOH B 10 510 59 HOH HOH . J 3 HOH B 11 511 35 HOH HOH . J 3 HOH B 12 512 24 HOH HOH . J 3 HOH B 13 513 53 HOH HOH . J 3 HOH B 14 514 50 HOH HOH . J 3 HOH B 15 515 21 HOH HOH . J 3 HOH B 16 516 45 HOH HOH . J 3 HOH B 17 517 51 HOH HOH . K 3 HOH D 1 501 7 HOH HOH . K 3 HOH D 2 502 16 HOH HOH . K 3 HOH D 3 503 20 HOH HOH . K 3 HOH D 4 504 18 HOH HOH . K 3 HOH D 5 505 23 HOH HOH . K 3 HOH D 6 506 47 HOH HOH . K 3 HOH D 7 507 41 HOH HOH . K 3 HOH D 8 508 39 HOH HOH . K 3 HOH D 9 509 26 HOH HOH . K 3 HOH D 10 510 56 HOH HOH . L 3 HOH A 1 501 60 HOH HOH . L 3 HOH A 2 502 34 HOH HOH . L 3 HOH A 3 503 6 HOH HOH . L 3 HOH A 4 504 8 HOH HOH . L 3 HOH A 5 505 15 HOH HOH . L 3 HOH A 6 506 54 HOH HOH . L 3 HOH A 7 507 4 HOH HOH . L 3 HOH A 8 508 11 HOH HOH . L 3 HOH A 9 509 14 HOH HOH . L 3 HOH A 10 510 46 HOH HOH . L 3 HOH A 11 511 52 HOH HOH . L 3 HOH A 12 512 48 HOH HOH . L 3 HOH A 13 513 1 HOH HOH . L 3 HOH A 14 514 17 HOH HOH . L 3 HOH A 15 515 33 HOH HOH . L 3 HOH A 16 516 55 HOH HOH . L 3 HOH A 17 517 27 HOH HOH . L 3 HOH A 18 518 30 HOH HOH . L 3 HOH A 19 519 2 HOH HOH . L 3 HOH A 20 520 61 HOH HOH . L 3 HOH A 21 521 58 HOH HOH . L 3 HOH A 22 522 64 HOH HOH . L 3 HOH A 23 523 63 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 O O26 O6K . . . F 2 43.125 -9.218 33.722 1 59.37 ? O26 O6K 401 B 1 HETATM 2 C C24 O6K . . . F 2 42.004 -9.344 33.368 1 51.36 ? C24 O6K 401 B 1 HETATM 3 O O25 O6K . . . F 2 41.174 -10.442 33.67 1 48.16 ? O25 O6K 401 B 1 HETATM 4 C C27 O6K . . . F 2 41.308 -11.164 34.89 1 50.63 ? C27 O6K 401 B 1 HETATM 5 C C31 O6K . . . F 2 40.18 -12.211 34.9 1 47.52 ? C31 O6K 401 B 1 HETATM 6 C C32 O6K . . . F 2 41.181 -10.28 36.154 1 51.59 ? C32 O6K 401 B 1 HETATM 7 C C33 O6K . . . F 2 42.668 -11.883 34.923 1 49.53 ? C33 O6K 401 B 1 HETATM 8 N N23 O6K . . . F 2 41.394 -8.333 32.539 1 51.91 ? N23 O6K 401 B 1 HETATM 9 C C19 O6K . . . F 2 42.131 -7.259 31.887 1 57.87 ? C19 O6K 401 B 1 HETATM 10 C C21 O6K . . . F 2 41.393 -6.573 30.813 1 50.56 ? C21 O6K 401 B 1 HETATM 11 O O22 O6K . . . F 2 40.104 -6.967 30.48 1 50.29 ? O22 O6K 401 B 1 HETATM 12 C C18 O6K . . . F 2 43.433 -6.862 32.222 1 46.75 ? C18 O6K 401 B 1 HETATM 13 C C17 O6K . . . F 2 44.042 -5.766 31.505 1 50.05 ? C17 O6K 401 B 1 HETATM 14 C C16 O6K . . . F 2 43.323 -5.094 30.463 1 52.68 ? C16 O6K 401 B 1 HETATM 15 N N15 O6K . . . F 2 41.982 -5.533 30.142 1 49.01 ? N15 O6K 401 B 1 HETATM 16 C C20 O6K . . . F 2 41.185 -4.912 29.119 1 50.59 ? C20 O6K 401 B 1 HETATM 17 C C22 O6K . . . F 2 41.7 -3.492 28.891 1 44.35 ? C22 O6K 401 B 1 HETATM 18 C C29 O6K . . . F 2 40.643 -2.625 29.618 1 49.12 ? C29 O6K 401 B 1 HETATM 19 C C34 O6K . . . F 2 40.821 -1.113 29.453 1 59.79 ? C34 O6K 401 B 1 HETATM 20 C C30 O6K . . . F 2 41.128 -1.789 30.807 1 54.31 ? C30 O6K 401 B 1 HETATM 21 C C36 O6K . . . F 2 41.187 -5.783 27.867 1 46.18 ? C36 O6K 401 B 1 HETATM 22 O O37 O6K . . . F 2 42.156 -6.38 27.555 1 50.31 ? O37 O6K 401 B 1 HETATM 23 N N38 O6K . . . F 2 39.98 -5.918 27.053 1 45.3 ? N38 O6K 401 B 1 HETATM 24 C C40 O6K . . . F 2 40.113 -6.752 25.876 1 48.29 ? C40 O6K 401 B 1 HETATM 25 C C42 O6K . . . F 2 39.057 -7.869 25.872 1 46.71 ? C42 O6K 401 B 1 HETATM 26 C C45 O6K . . . F 2 39.396 -8.941 26.966 1 43.54 ? C45 O6K 401 B 1 HETATM 27 C C47 O6K . . . F 2 38.269 -9.909 27.068 1 54.33 ? C47 O6K 401 B 1 HETATM 28 O O48 O6K . . . F 2 37.128 -9.632 27.26 1 48.13 ? O48 O6K 401 B 1 HETATM 29 N N49 O6K . . . F 2 38.793 -11.264 26.886 1 46.33 ? N49 O6K 401 B 1 HETATM 30 C C51 O6K . . . F 2 40.298 -11.202 26.668 1 47.38 ? C51 O6K 401 B 1 HETATM 31 C C54 O6K . . . F 2 40.654 -9.664 26.549 1 48.52 ? C54 O6K 401 B 1 HETATM 32 C C57 O6K . . . F 2 39.912 -5.738 24.757 1 46.83 ? C57 O6K 401 B 1 HETATM 33 O O40 O6K . . . F 2 40.648 -4.579 25.045 1 50.5 ? O40 O6K 401 B 1 HETATM 34 C C35 O6K . . . F 2 40.428 -6.187 23.385 1 50.67 ? C35 O6K 401 B 1 HETATM 35 O O41 O6K . . . F 2 39.843 -6.999 22.743 1 52.97 ? O41 O6K 401 B 1 HETATM 36 N N36 O6K . . . F 2 41.656 -5.52 22.906 1 54.17 ? N36 O6K 401 B 1 HETATM 37 C C13 O6K . . . F 2 42.276 -5.825 21.612 1 50.05 ? C13 O6K 401 B 1 HETATM 38 C C14 O6K . . . F 2 43.381 -6.865 21.848 1 55.69 ? C14 O6K 401 B 1 HETATM 39 C C28 O6K . . . F 2 44.052 -7.354 20.813 1 61.56 ? C28 O6K 401 B 1 HETATM 40 C C26 O6K . . . F 2 45.141 -8.396 21.052 1 56.74 ? C26 O6K 401 B 1 HETATM 41 C C25 O6K . . . F 2 45.402 -8.802 22.292 1 57.72 ? C25 O6K 401 B 1 HETATM 42 C C23 O6K . . . F 2 44.628 -8.238 23.491 1 51.47 ? C23 O6K 401 B 1 HETATM 43 C C15 O6K . . . F 2 43.681 -7.332 23.284 1 55.71 ? C15 O6K 401 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #