data_7N68 # _model_server_result.job_id N8EmEuA1n6sVeVleUF4CmA _model_server_result.datetime_utc '2024-11-13 21:47:04' _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 7n68 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 7N68 # _exptl.entry_id 7N68 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 451.475 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'benzyl {2-[(5S)-5-hydroxy-4-oxo-6-{[2-(pyridin-4-yl)ethyl]carbamoyl}-4,5-dihydropyrimidin-2-yl]propan-2-yl}carbamate' _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 7N68 _cell.length_a 90.33 _cell.length_b 90.33 _cell.length_c 132.69 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7N68 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 5 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 7 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc2 A OE2 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O4 0VL . A 0VL 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O5 0VL . A 0VL 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O4 0VL . A 0VL 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc10 C MN MN . A MN 202 1_555 H O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc11 C MN MN . A MN 202 1_555 H O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? # _chem_comp.formula 'C23 H25 N5 O5' _chem_comp.formula_weight 451.475 _chem_comp.id 0VL _chem_comp.mon_nstd_flag . _chem_comp.name 'benzyl {2-[(5S)-5-hydroxy-4-oxo-6-{[2-(pyridin-4-yl)ethyl]carbamoyl}-4,5-dihydropyrimidin-2-yl]propan-2-yl}carbamate' _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 N5 C20 0VL doub 1 n y N5 C19 0VL sing 2 n y C20 C21 0VL sing 3 n y C19 C18 0VL doub 4 n y C21 C17 0VL doub 5 n y C18 C17 0VL sing 6 n y C17 C16 0VL sing 7 n n C16 C15 0VL sing 8 n n C3 C2 0VL sing 9 n n C15 N4 0VL sing 10 n n C1 C2 0VL sing 11 n n C2 N1 0VL sing 12 n n C2 C12 0VL sing 13 n n N4 C14 0VL sing 14 n n N1 C4 0VL sing 15 n n N3 C12 0VL doub 16 n n N3 C13 0VL sing 17 n n O2 C4 0VL doub 18 n n C12 N2 0VL sing 19 n n C4 O1 0VL sing 20 n n C14 C13 0VL sing 21 n n C14 O3 0VL doub 22 n n C13 C22 0VL doub 23 n n C5 O1 0VL sing 24 n n C5 C6 0VL sing 25 n n N2 C23 0VL sing 26 n n C7 C6 0VL doub 27 n y C7 C8 0VL sing 28 n y C6 C11 0VL sing 29 n y C22 C23 0VL sing 30 n n C22 O4 0VL sing 31 n n C23 O5 0VL doub 32 n n C8 C9 0VL doub 33 n y C11 C10 0VL doub 34 n y C9 C10 0VL sing 35 n y C1 H1 0VL sing 36 n n C1 H2 0VL sing 37 n n C1 H3 0VL sing 38 n n C3 H4 0VL sing 39 n n C3 H5 0VL sing 40 n n C3 H6 0VL sing 41 n n C7 H7 0VL sing 42 n n C8 H8 0VL sing 43 n n C9 H9 0VL sing 44 n n C10 H10 0VL sing 45 n n C15 H11 0VL sing 46 n n C15 H12 0VL sing 47 n n C18 H13 0VL sing 48 n n C19 H14 0VL sing 49 n n C20 H15 0VL sing 50 n n C21 H16 0VL sing 51 n n C11 H18 0VL sing 52 n n C16 H19 0VL sing 53 n n C16 H20 0VL sing 54 n n C5 H21 0VL sing 55 n n C5 H22 0VL sing 56 n n N1 H23 0VL sing 57 n n N4 H24 0VL sing 58 n n O4 H25 0VL sing 59 n n N2 H17 0VL sing 60 n n # _atom_sites.entry_id 7N68 _atom_sites.fract_transf_matrix[1][1] 0.011071 _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] 0.011071 _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] 0.007536 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 QQ4 A 1 203 401 QQ4 PVP . E 4 0VL A 1 204 402 0VL 288 . F 5 SO4 A 1 205 1 SO4 SO4 . G 5 SO4 A 1 206 2 SO4 SO4 . H 6 HOH A 1 301 2 HOH HOH . H 6 HOH A 2 302 1 HOH HOH . H 6 HOH A 3 303 20 HOH HOH . H 6 HOH A 4 304 4 HOH HOH . H 6 HOH A 5 305 9 HOH HOH . H 6 HOH A 6 306 17 HOH HOH . H 6 HOH A 7 307 19 HOH HOH . H 6 HOH A 8 308 10 HOH HOH . H 6 HOH A 9 309 12 HOH HOH . H 6 HOH A 10 310 3 HOH HOH . H 6 HOH A 11 311 8 HOH HOH . H 6 HOH A 12 312 13 HOH HOH . H 6 HOH A 13 313 14 HOH HOH . H 6 HOH A 14 314 11 HOH HOH . H 6 HOH A 15 315 18 HOH HOH . H 6 HOH A 16 316 15 HOH HOH . H 6 HOH A 17 317 16 HOH HOH . H 6 HOH A 18 318 21 HOH HOH . H 6 HOH A 19 319 7 HOH HOH . H 6 HOH A 20 320 6 HOH HOH . H 6 HOH A 21 321 22 HOH HOH . H 6 HOH A 22 322 5 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 C1 0VL . . . E 4 8.07 29.194 14.294 1 63.1 ? C1 0VL 204 A 1 HETATM 2 C C2 0VL . . . E 4 7.189 30.435 14.684 1 69.65 ? C2 0VL 204 A 1 HETATM 3 C C3 0VL . . . E 4 6.514 31.039 13.463 1 69.21 ? C3 0VL 204 A 1 HETATM 4 C C4 0VL . . . E 4 7.466 32.723 15.833 1 72.71 ? C4 0VL 204 A 1 HETATM 5 N N5 0VL . . . E 4 4.699 31.452 9.567 1 74.8 ? N5 0VL 204 A 1 HETATM 6 C C6 0VL . . . E 4 4.02 32.802 17.394 1 104.81 ? C6 0VL 204 A 1 HETATM 7 C C7 0VL . . . E 4 2.705 32.852 17.014 1 100.87 ? C7 0VL 204 A 1 HETATM 8 C C8 0VL . . . E 4 1.697 32.472 17.91 1 101.4 ? C8 0VL 204 A 1 HETATM 9 C C9 0VL . . . E 4 2.029 32.04 19.195 1 82.89 ? C9 0VL 204 A 1 HETATM 10 C C10 0VL . . . E 4 3.351 31.988 19.58 1 85.21 ? C10 0VL 204 A 1 HETATM 11 C C14 0VL . . . E 4 2.349 29.535 16.061 1 64 ? C14 0VL 204 A 1 HETATM 12 C C15 0VL . . . E 4 2.316 30.561 13.665 1 77.45 ? C15 0VL 204 A 1 HETATM 13 C C18 0VL . . . E 4 2.873 31.664 11.071 1 76.64 ? C18 0VL 204 A 1 HETATM 14 C C19 0VL . . . E 4 3.76 32.229 10.155 1 68.04 ? C19 0VL 204 A 1 HETATM 15 C C20 0VL . . . E 4 4.782 30.131 9.864 1 79 ? C20 0VL 204 A 1 HETATM 16 C C21 0VL . . . E 4 3.901 29.552 10.786 1 64.65 ? C21 0VL 204 A 1 HETATM 17 C C22 0VL . . . E 4 4.345 29.122 17.519 1 58.32 ? C22 0VL 204 A 1 HETATM 18 C C23 0VL . . . E 4 5.656 29.113 17.816 1 57.14 ? C23 0VL 204 A 1 HETATM 19 C C11 0VL . . . E 4 4.349 32.367 18.686 1 97.37 ? C11 0VL 204 A 1 HETATM 20 C C12 0VL . . . E 4 6.107 29.957 15.702 1 69.64 ? C12 0VL 204 A 1 HETATM 21 C C13 0VL . . . E 4 3.902 29.563 16.288 1 68.43 ? C13 0VL 204 A 1 HETATM 22 C C16 0VL . . . E 4 1.971 29.737 12.394 1 52.26 ? C16 0VL 204 A 1 HETATM 23 C C17 0VL . . . E 4 2.952 30.332 11.362 1 73.84 ? C17 0VL 204 A 1 HETATM 24 C C5 0VL . . . E 4 5.163 33.234 16.373 1 92.35 ? C5 0VL 204 A 1 HETATM 25 N N1 0VL . . . E 4 8.058 31.456 15.338 1 66.27 ? N1 0VL 204 A 1 HETATM 26 N N2 0VL . . . E 4 6.538 29.524 16.929 1 62.35 ? N2 0VL 204 A 1 HETATM 27 N N3 0VL . . . E 4 4.788 29.974 15.395 1 68.23 ? N3 0VL 204 A 1 HETATM 28 N N4 0VL . . . E 4 1.632 29.997 14.866 1 78.09 ? N4 0VL 204 A 1 HETATM 29 O O1 0VL . . . E 4 6.432 32.706 16.812 1 99.41 ? O1 0VL 204 A 1 HETATM 30 O O2 0VL . . . E 4 7.855 33.737 15.415 1 99.05 ? O2 0VL 204 A 1 HETATM 31 O O3 0VL . . . E 4 1.681 29.125 16.938 1 76.16 ? O3 0VL 204 A 1 HETATM 32 O O4 0VL . . . E 4 3.392 28.671 18.497 1 72.14 ? O4 0VL 204 A 1 HETATM 33 O O5 0VL . . . E 4 6.021 28.725 18.877 1 53.07 ? O5 0VL 204 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #