data_5DP8 # _model_server_result.job_id 6PqUGcWRectJuOpOY1aJuw _model_server_result.datetime_utc '2024-11-15 00:01:06' _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 5dp8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5DP8 # _exptl.entry_id 5DP8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 512.598 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ethyl (2Z,4S)-4-[(N-{[(2-cyclopropylethyl)amino](oxo)acetyl}-L-phenylalanyl)amino]-5-[(3S)-2-oxopyrrolidin-3-yl]pent-2-enoate' _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 5DP8 _cell.length_a 63.945 _cell.length_b 64.976 _cell.length_c 75.606 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DP8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 148 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 147 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C14 _struct_conn.ptnr2_label_comp_id 5ED _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id 5ED _struct_conn.ptnr2_auth_seq_id 201 _struct_conn.ptnr2_symmetry 1_555 _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 1.823 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C27 H36 N4 O6' _chem_comp.formula_weight 512.598 _chem_comp.id 5ED _chem_comp.mon_nstd_flag . _chem_comp.name 'ethyl (2Z,4S)-4-[(N-{[(2-cyclopropylethyl)amino](oxo)acetyl}-L-phenylalanyl)amino]-5-[(3S)-2-oxopyrrolidin-3-yl]pent-2-enoate' _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 O3 C16 5ED doub 1 n n C16 O2 5ED sing 2 n n C16 C15 5ED sing 3 n n O2 C18 5ED sing 4 n n C15 C14 5ED doub 5 z n C14 C10 5ED sing 6 n n C18 C19 5ED sing 7 n n C11 C10 5ED sing 8 n n C11 C12 5ED sing 9 n n C10 N 5ED sing 10 n n O1 C13 5ED doub 11 n n C13 C12 5ED sing 12 n n C13 N1 5ED sing 13 n n N C17 5ED sing 14 n n C12 C26 5ED sing 15 n n C26 C25 5ED sing 16 n n N1 C25 5ED sing 17 n n O4 C17 5ED doub 18 n n C17 C2 5ED sing 19 n n C3 C2 5ED sing 20 n n C3 C4 5ED sing 21 n n C2 N2 5ED sing 22 n n C4 C5 5ED doub 23 n y C4 C9 5ED sing 24 n y C5 C6 5ED sing 25 n y O21 C20 5ED doub 26 n n N2 C20 5ED sing 27 n n C9 C8 5ED doub 28 n y C20 C22 5ED sing 29 n n C6 C7 5ED doub 30 n y C8 C7 5ED sing 31 n y C22 O5 5ED doub 32 n n C22 N6 5ED sing 33 n n C21 N6 5ED sing 34 n n C21 C23 5ED sing 35 n n C23 C1 5ED sing 36 n n C27 C1 5ED sing 37 n n C27 C24 5ED sing 38 n n C1 C24 5ED sing 39 n n N1 H1 5ED sing 40 n n C5 H2 5ED sing 41 n n C6 H3 5ED sing 42 n n C7 H4 5ED sing 43 n n C8 H5 5ED sing 44 n n C10 H6 5ED sing 45 n n C15 H7 5ED sing 46 n n C24 H9 5ED sing 47 n n C24 H10 5ED sing 48 n n C26 H11 5ED sing 49 n n C26 H12 5ED sing 50 n n C1 H13 5ED sing 51 n n C2 H14 5ED sing 52 n n C3 H15 5ED sing 53 n n C3 H16 5ED sing 54 n n C9 H17 5ED sing 55 n n C11 H18 5ED sing 56 n n C11 H19 5ED sing 57 n n C12 H20 5ED sing 58 n n C14 H21 5ED sing 59 n n C18 H23 5ED sing 60 n n C18 H24 5ED sing 61 n n C23 H25 5ED sing 62 n n C23 H26 5ED sing 63 n n C25 H27 5ED sing 64 n n C25 H28 5ED sing 65 n n C19 H29 5ED sing 66 n n C19 H30 5ED sing 67 n n C19 H31 5ED sing 68 n n N H32 5ED sing 69 n n N2 H33 5ED sing 70 n n N6 H34 5ED sing 71 n n C21 H35 5ED sing 72 n n C21 H36 5ED sing 73 n n C27 H37 5ED sing 74 n n C27 H38 5ED sing 75 n n # _atom_sites.entry_id 5DP8 _atom_sites.fract_transf_matrix[1][1] 0.015638 _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] 0.01539 _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] 0.013226 _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 5ED A 1 201 1 5ED 337 . C 3 HOH A 1 301 43 HOH HOH . C 3 HOH A 2 302 18 HOH HOH . C 3 HOH A 3 303 19 HOH HOH . C 3 HOH A 4 304 34 HOH HOH . C 3 HOH A 5 305 22 HOH HOH . C 3 HOH A 6 306 11 HOH HOH . C 3 HOH A 7 307 26 HOH HOH . C 3 HOH A 8 308 20 HOH HOH . C 3 HOH A 9 309 35 HOH HOH . C 3 HOH A 10 310 13 HOH HOH . C 3 HOH A 11 311 21 HOH HOH . C 3 HOH A 12 312 12 HOH HOH . C 3 HOH A 13 313 24 HOH HOH . C 3 HOH A 14 314 25 HOH HOH . C 3 HOH A 15 315 9 HOH HOH . C 3 HOH A 16 316 32 HOH HOH . C 3 HOH A 17 317 6 HOH HOH . C 3 HOH A 18 318 8 HOH HOH . C 3 HOH A 19 319 40 HOH HOH . C 3 HOH A 20 320 1 HOH HOH . C 3 HOH A 21 321 7 HOH HOH . C 3 HOH A 22 322 23 HOH HOH . C 3 HOH A 23 323 14 HOH HOH . C 3 HOH A 24 324 4 HOH HOH . C 3 HOH A 25 325 39 HOH HOH . C 3 HOH A 26 326 36 HOH HOH . C 3 HOH A 27 327 44 HOH HOH . C 3 HOH A 28 328 16 HOH HOH . C 3 HOH A 29 329 10 HOH HOH . C 3 HOH A 30 330 33 HOH HOH . C 3 HOH A 31 331 27 HOH HOH . C 3 HOH A 32 332 17 HOH HOH . C 3 HOH A 33 333 5 HOH HOH . C 3 HOH A 34 334 2 HOH HOH . C 3 HOH A 35 335 3 HOH HOH . C 3 HOH A 36 336 42 HOH HOH . C 3 HOH A 37 337 41 HOH HOH . C 3 HOH A 38 338 38 HOH HOH . C 3 HOH A 39 339 30 HOH HOH . C 3 HOH A 40 340 28 HOH HOH . C 3 HOH A 41 341 31 HOH HOH . C 3 HOH A 42 342 37 HOH HOH . C 3 HOH A 43 343 15 HOH HOH . C 3 HOH A 44 344 29 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 5ED . . . B 2 -1.755 -8.756 -2.827 1 39.05 ? N1 5ED 201 A 1 HETATM 2 C C4 5ED . . . B 2 -10.486 -6.788 -0.495 1 37.28 ? C4 5ED 201 A 1 HETATM 3 C C5 5ED . . . B 2 -10.86 -8.115 -0.255 1 37.37 ? C5 5ED 201 A 1 HETATM 4 C C6 5ED . . . B 2 -11.955 -8.372 0.593 1 39.85 ? C6 5ED 201 A 1 HETATM 5 C C7 5ED . . . B 2 -12.667 -7.327 1.19 1 38.08 ? C7 5ED 201 A 1 HETATM 6 C C8 5ED . . . B 2 -12.296 -6.001 0.932 1 40.28 ? C8 5ED 201 A 1 HETATM 7 C C10 5ED . . . B 2 -6.125 -7.91 -4.387 1 33.04 ? C10 5ED 201 A 1 HETATM 8 C C13 5ED . . . B 2 -2.767 -9.504 -3.21 1 39.29 ? C13 5ED 201 A 1 HETATM 9 C C15 5ED . . . B 2 -7.773 -6.76 -5.915 1 37.55 ? C15 5ED 201 A 1 HETATM 10 C C17 5ED . . . B 2 -7.214 -7.008 -2.374 1 34.74 ? C17 5ED 201 A 1 HETATM 11 C C20 5ED . . . B 2 -6.304 -7.408 0.559 1 46.6 ? C20 5ED 201 A 1 HETATM 12 C C22 5ED . . . B 2 -6.112 -6.83 1.935 1 52.43 ? C22 5ED 201 A 1 HETATM 13 C C24 5ED . . . B 2 -4.409 -10.235 5.793 1 65.25 ? C24 5ED 201 A 1 HETATM 14 C C26 5ED . . . B 2 -3.526 -7.262 -3.022 1 39.55 ? C26 5ED 201 A 1 HETATM 15 C C1 5ED . . . B 2 -4.846 -9.073 4.896 1 64.51 ? C1 5ED 201 A 1 HETATM 16 C C2 5ED . . . B 2 -8.086 -7.286 -1.213 1 37.53 ? C2 5ED 201 A 1 HETATM 17 C C3 5ED . . . B 2 -9.33 -6.434 -1.413 1 37 ? C3 5ED 201 A 1 HETATM 18 C C9 5ED . . . B 2 -11.206 -5.736 0.093 1 40.16 ? C9 5ED 201 A 1 HETATM 19 C C11 5ED . . . B 2 -4.926 -8.88 -4.389 1 34.77 ? C11 5ED 201 A 1 HETATM 20 C C12 5ED . . . B 2 -4.032 -8.695 -3.168 1 37.79 ? C12 5ED 201 A 1 HETATM 21 C C14 5ED . . . B 2 -6.976 -8.065 -5.673 1 33.89 ? C14 5ED 201 A 1 HETATM 22 C C16 5ED . . . B 2 -7.015 -5.584 -6.502 1 43.42 ? C16 5ED 201 A 1 HETATM 23 C C18 5ED . . . B 2 -6.753 -3.288 -5.664 1 57.04 ? C18 5ED 201 A 1 HETATM 24 C C23 5ED . . . B 2 -3.683 -8.298 4.257 1 61.72 ? C23 5ED 201 A 1 HETATM 25 C C25 5ED . . . B 2 -2.106 -7.396 -2.505 1 38.25 ? C25 5ED 201 A 1 HETATM 26 O O3 5ED . . . B 2 -5.981 -5.683 -7.15 1 45.24 ? O3 5ED 201 A 1 HETATM 27 O O2 5ED . . . B 2 -7.554 -4.263 -6.299 1 49.41 ? O2 5ED 201 A 1 HETATM 28 C C19 5ED . . . B 2 -6.794 -3.598 -4.178 1 65.63 ? C19 5ED 201 A 1 HETATM 29 O O1 5ED . . . B 2 -2.686 -10.677 -3.528 1 42.32 ? O1 5ED 201 A 1 HETATM 30 N N 5ED . . . B 2 -6.964 -8.044 -3.193 1 32.52 ? N 5ED 201 A 1 HETATM 31 O O4 5ED . . . B 2 -6.774 -5.87 -2.501 1 34.38 ? O4 5ED 201 A 1 HETATM 32 N N2 5ED . . . B 2 -7.483 -6.983 0.072 1 40.76 ? N2 5ED 201 A 1 HETATM 33 O O21 5ED . . . B 2 -5.523 -8.139 -0.087 1 40.54 ? O21 5ED 201 A 1 HETATM 34 O O5 5ED . . . B 2 -6.976 -6.046 2.314 1 57.26 ? O5 5ED 201 A 1 HETATM 35 N N6 5ED . . . B 2 -5.161 -6.987 2.855 1 56.57 ? N6 5ED 201 A 1 HETATM 36 C C21 5ED . . . B 2 -3.999 -7.829 2.83 1 59.89 ? C21 5ED 201 A 1 HETATM 37 C C27 5ED . . . B 2 -5.082 -10.52 4.458 1 63.06 ? C27 5ED 201 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 37 #