data_3K5D # _model_server_result.job_id PVitwsYg67rqo78shOa-0A _model_server_result.datetime_utc '2024-10-18 06:28:03' _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 3k5d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":393}' # _entry.id 3K5D # _exptl.entry_id 3K5D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 544.791 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-acetyl-L-leucyl-N-[(4S,5S,7R)-8-(butylamino)-5-hydroxy-2,7-dimethyl-8-oxooctan-4-yl]-L-methioninamide _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.16 _cell.angle_gamma 90 _cell.entry_id 3K5D _cell.length_a 82.547 _cell.length_b 101.299 _cell.length_c 102.218 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K5D _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,G 1 1 B,E,H 2 1 C,F,I 3 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 D N N ? 2 E N N ? 2 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 disulf ? disulf1 A SG CYS 171 A CYS 155 1_555 A SG CYS 375 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 233 A CYS 217 1_555 A SG CYS 398 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 285 A CYS 269 1_555 A SG CYS 335 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 B SG CYS 171 B CYS 155 1_555 B SG CYS 375 B CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf5 B SG CYS 233 B CYS 217 1_555 B SG CYS 398 B CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 B SG CYS 285 B CYS 269 1_555 B SG CYS 335 B CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 C SG CYS 171 C CYS 155 1_555 C SG CYS 375 C CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 C SG CYS 233 C CYS 217 1_555 C SG CYS 398 C CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 C SG CYS 285 C CYS 269 1_555 C SG CYS 335 C CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? # _chem_comp.formula 'C27 H52 N4 O5 S' _chem_comp.formula_weight 544.791 _chem_comp.id XLI _chem_comp.mon_nstd_flag . _chem_comp.name N-acetyl-L-leucyl-N-[(4S,5S,7R)-8-(butylamino)-5-hydroxy-2,7-dimethyl-8-oxooctan-4-yl]-L-methioninamide _chem_comp.type peptide-like _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3K5D _atom_sites.fract_transf_matrix[1][1] 0.012114 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003056 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009872 _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] 0.010089 _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 D 2 XLI A 1 393 1 XLI LI1 . E 2 XLI B 1 393 1 XLI LI1 . F 2 XLI C 1 393 1 XLI LI1 . G 3 HOH A 1 394 1 HOH HOH . G 3 HOH A 2 395 2 HOH HOH . G 3 HOH A 3 396 3 HOH HOH . G 3 HOH A 4 397 4 HOH HOH . G 3 HOH A 5 398 14 HOH HOH . G 3 HOH A 6 399 15 HOH HOH . G 3 HOH A 7 400 16 HOH HOH . G 3 HOH A 8 401 17 HOH HOH . G 3 HOH A 9 402 18 HOH HOH . G 3 HOH A 10 403 19 HOH HOH . G 3 HOH A 11 404 20 HOH HOH . G 3 HOH A 12 405 21 HOH HOH . G 3 HOH A 13 406 22 HOH HOH . G 3 HOH A 14 407 23 HOH HOH . G 3 HOH A 15 408 24 HOH HOH . G 3 HOH A 16 409 25 HOH HOH . G 3 HOH A 17 410 26 HOH HOH . G 3 HOH A 18 411 27 HOH HOH . G 3 HOH A 19 412 28 HOH HOH . G 3 HOH A 20 413 29 HOH HOH . G 3 HOH A 21 414 30 HOH HOH . G 3 HOH A 22 415 31 HOH HOH . G 3 HOH A 23 416 32 HOH HOH . G 3 HOH A 24 417 33 HOH HOH . G 3 HOH A 25 418 34 HOH HOH . H 3 HOH B 1 394 5 HOH HOH . H 3 HOH B 2 395 6 HOH HOH . H 3 HOH B 3 396 7 HOH HOH . H 3 HOH B 4 397 8 HOH HOH . H 3 HOH B 5 398 9 HOH HOH . H 3 HOH B 6 399 10 HOH HOH . H 3 HOH B 7 400 35 HOH HOH . H 3 HOH B 8 401 36 HOH HOH . H 3 HOH B 9 402 37 HOH HOH . H 3 HOH B 10 403 38 HOH HOH . H 3 HOH B 11 404 39 HOH HOH . H 3 HOH B 12 405 40 HOH HOH . H 3 HOH B 13 406 41 HOH HOH . H 3 HOH B 14 407 42 HOH HOH . H 3 HOH B 15 408 43 HOH HOH . H 3 HOH B 16 409 44 HOH HOH . H 3 HOH B 17 410 45 HOH HOH . H 3 HOH B 18 411 46 HOH HOH . H 3 HOH B 19 412 47 HOH HOH . H 3 HOH B 20 413 48 HOH HOH . H 3 HOH B 21 414 49 HOH HOH . H 3 HOH B 22 415 50 HOH HOH . H 3 HOH B 23 416 51 HOH HOH . H 3 HOH B 24 417 52 HOH HOH . H 3 HOH B 25 418 53 HOH HOH . H 3 HOH B 26 419 54 HOH HOH . I 3 HOH C 1 394 11 HOH HOH . I 3 HOH C 2 395 12 HOH HOH . I 3 HOH C 3 396 13 HOH HOH . I 3 HOH C 4 397 55 HOH HOH . I 3 HOH C 5 398 56 HOH HOH . I 3 HOH C 6 399 57 HOH HOH . I 3 HOH C 7 400 58 HOH HOH . I 3 HOH C 8 401 59 HOH HOH . I 3 HOH C 9 402 60 HOH HOH . I 3 HOH C 10 403 61 HOH HOH . I 3 HOH C 11 404 62 HOH HOH . I 3 HOH C 12 405 63 HOH HOH . I 3 HOH C 13 406 64 HOH HOH . I 3 HOH C 14 407 65 HOH HOH . I 3 HOH C 15 408 66 HOH HOH . I 3 HOH C 16 409 67 HOH HOH . I 3 HOH C 17 410 68 HOH HOH . I 3 HOH C 18 411 69 HOH HOH . I 3 HOH C 19 412 70 HOH HOH . I 3 HOH C 20 413 71 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 C XLI . . . F 2 8.739 -1.478 68.154 1 47.6 ? C XLI 393 C 1 HETATM 2 O O XLI . . . F 2 9.352 -1.781 69.204 1 44.88 ? O XLI 393 C 1 HETATM 3 C CH3 XLI . . . F 2 7.582 -2.317 67.739 1 47.17 ? CH3 XLI 393 C 1 HETATM 4 N N XLI . . . F 2 9.051 -0.431 67.358 1 43.64 ? N XLI 393 C 1 HETATM 5 C CA XLI . . . F 2 10.182 0.418 67.694 1 46.88 ? CA XLI 393 C 1 HETATM 6 C C1 XLI . . . F 2 9.8 1.465 68.728 1 46.64 ? C1 XLI 393 C 1 HETATM 7 O O1 XLI . . . F 2 8.667 1.927 68.694 1 39.74 ? O1 XLI 393 C 1 HETATM 8 C CB XLI . . . F 2 11.003 0.97 66.478 1 46.74 ? CB XLI 393 C 1 HETATM 9 C CG XLI . . . F 2 10.304 1.982 65.52 1 45.98 ? CG XLI 393 C 1 HETATM 10 C CD1 XLI . . . F 2 9.05 1.363 64.854 1 59.1 ? CD1 XLI 393 C 1 HETATM 11 C CD2 XLI . . . F 2 11.278 2.434 64.417 1 47.45 ? CD2 XLI 393 C 1 HETATM 12 N N1 XLI . . . F 2 10.746 1.825 69.636 1 46.86 ? N1 XLI 393 C 1 HETATM 13 C CA1 XLI . . . F 2 10.489 2.809 70.673 1 47.55 ? CA1 XLI 393 C 1 HETATM 14 C C2 XLI . . . F 2 11.526 3.911 70.551 1 46.78 ? C2 XLI 393 C 1 HETATM 15 O O2 XLI . . . F 2 12.423 4.015 71.387 1 54.29 ? O2 XLI 393 C 1 HETATM 16 C CB1 XLI . . . F 2 10.478 2.196 72.108 1 51.66 ? CB1 XLI 393 C 1 HETATM 17 C CG1 XLI . . . F 2 9.245 1.275 72.329 1 52.05 ? CG1 XLI 393 C 1 HETATM 18 S SD XLI . . . F 2 9.517 0.314 73.844 1 62.5 ? SD XLI 393 C 1 HETATM 19 C CE XLI . . . F 2 10.303 -1.171 73.144 1 57.58 ? CE XLI 393 C 1 HETATM 20 N N2 XLI . . . F 2 11.413 4.764 69.496 1 36.47 ? N2 XLI 393 C 1 HETATM 21 C CA2 XLI . . . F 2 12.351 5.863 69.251 1 32.01 ? CA2 XLI 393 C 1 HETATM 22 C C3 XLI . . . F 2 11.753 7.233 69.716 1 34.82 ? C3 XLI 393 C 1 HETATM 23 O O3 XLI . . . F 2 10.767 7.703 68.784 1 45.19 ? O3 XLI 393 C 1 HETATM 24 C CB2 XLI . . . F 2 12.822 5.852 67.772 1 28.51 ? CB2 XLI 393 C 1 HETATM 25 C CG2 XLI . . . F 2 13.537 4.557 67.289 1 28.1 ? CG2 XLI 393 C 1 HETATM 26 C CD11 XLI . . . F 2 13.852 4.708 65.77 1 32.9 ? CD11 XLI 393 C 1 HETATM 27 C CD21 XLI . . . F 2 14.867 4.273 68.037 1 28.18 ? CD21 XLI 393 C 1 HETATM 28 C CM XLI . . . F 2 11.257 7.358 71.194 1 33.02 ? CM XLI 393 C 1 HETATM 29 C CA3 XLI . . . F 2 11.41 8.765 71.847 1 30.37 ? CA3 XLI 393 C 1 HETATM 30 C CB3 XLI . . . F 2 10.387 8.934 73.01 1 22.9 ? CB3 XLI 393 C 1 HETATM 31 C C4 XLI . . . F 2 12.793 9.025 72.415 1 35.94 ? C4 XLI 393 C 1 HETATM 32 O O4 XLI . . . F 2 13.46 8.083 72.825 1 37.21 ? O4 XLI 393 C 1 HETATM 33 C C11 XLI . . . F 2 14.518 10.714 72.946 1 30.86 ? C11 XLI 393 C 1 HETATM 34 N N3 XLI . . . F 2 13.214 10.319 72.433 1 31.88 ? N3 XLI 393 C 1 HETATM 35 C C21 XLI . . . F 2 14.873 12.169 72.549 1 37.38 ? C21 XLI 393 C 1 HETATM 36 C C31 XLI . . . F 2 16.069 12.727 73.369 1 31.39 ? C31 XLI 393 C 1 HETATM 37 C C41 XLI . . . F 2 17.42 12.09 72.933 1 33.06 ? C41 XLI 393 C 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 360 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 37 #