data_5Y7H # _model_server_result.job_id auW1f_rewsVF2VaRvmUwgQ _model_server_result.datetime_utc '2024-10-18 15:28:08' _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 5y7h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":802}' # _entry.id 5Y7H # _exptl.entry_id 5Y7H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 315.291 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (R)-4-(3-amino-4-(2,4,5-trifluorophenyl)butanoyl)piperazin-2-one _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.43 _cell.angle_gamma 90 _cell.entry_id 5Y7H _cell.length_a 64.301 _cell.length_b 126.42 _cell.length_c 113.382 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5Y7H _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # _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 C N N ? 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 290 A CYS 328 1_555 A SG CYS 301 A CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 347 A CYS 385 1_555 A SG CYS 356 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 406 A CYS 444 1_555 A SG CYS 409 A CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 416 A CYS 454 1_555 A SG CYS 434 A CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 611 A CYS 649 1_555 A SG CYS 724 A CYS 762 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 290 B CYS 328 1_555 B SG CYS 301 B CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 B SG CYS 347 B CYS 385 1_555 B SG CYS 356 B CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 B SG CYS 406 B CYS 444 1_555 B SG CYS 409 B CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf9 B SG CYS 416 B CYS 454 1_555 B SG CYS 434 B CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 B SG CYS 611 B CYS 649 1_555 B SG CYS 724 B CYS 762 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C14 H16 F3 N3 O2' _chem_comp.formula_weight 315.291 _chem_comp.id 8O3 _chem_comp.mon_nstd_flag . _chem_comp.name (R)-4-(3-amino-4-(2,4,5-trifluorophenyl)butanoyl)piperazin-2-one _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 O18 C14 8O3 doub 1 n n N15 C14 8O3 sing 2 n n N15 C16 8O3 sing 3 n n C14 C13 8O3 sing 4 n n C16 C17 8O3 sing 5 n n C17 N11 8O3 sing 6 n n C13 N11 8O3 sing 7 n n N11 C10 8O3 sing 8 n n C10 O12 8O3 doub 9 n n C10 C09 8O3 sing 10 n n C09 C08 8O3 sing 11 n n C08 C07 8O3 sing 12 n n C08 N19 8O3 sing 13 n n C07 C04 8O3 sing 14 n n C04 C05 8O3 doub 15 n y C04 C03 8O3 sing 16 n y F22 C03 8O3 sing 17 n n C05 C06 8O3 sing 18 n y C03 C02 8O3 doub 19 n y C06 F20 8O3 sing 20 n n C06 C01 8O3 doub 21 n y C02 C01 8O3 sing 22 n y C01 F21 8O3 sing 23 n n C13 H132 8O3 sing 24 n n C13 H131 8O3 sing 25 n n C17 H171 8O3 sing 26 n n C17 H172 8O3 sing 27 n n C02 H021 8O3 sing 28 n n C05 H051 8O3 sing 29 n n C07 H071 8O3 sing 30 n n C07 H072 8O3 sing 31 n n C08 H1 8O3 sing 32 n n C09 H092 8O3 sing 33 n n C09 H091 8O3 sing 34 n n N15 H2 8O3 sing 35 n n C16 H161 8O3 sing 36 n n C16 H162 8O3 sing 37 n n N19 H3 8O3 sing 38 n n N19 H4 8O3 sing 39 n n # _atom_sites.entry_id 5Y7H _atom_sites.fract_transf_matrix[1][1] 0.015552 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002862 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00791 _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] 0.008968 _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 C 2 8O3 A 1 801 1 8O3 LIG . D 2 8O3 A 1 802 1 8O3 LIG . E 2 8O3 B 1 801 1 8O3 LIG . F 2 8O3 B 1 802 1 8O3 LIG . G 3 HOH A 1 901 168 HOH HOH . G 3 HOH A 2 902 124 HOH HOH . G 3 HOH A 3 903 145 HOH HOH . G 3 HOH A 4 904 42 HOH HOH . G 3 HOH A 5 905 174 HOH HOH . G 3 HOH A 6 906 28 HOH HOH . G 3 HOH A 7 907 48 HOH HOH . G 3 HOH A 8 908 144 HOH HOH . G 3 HOH A 9 909 7 HOH HOH . G 3 HOH A 10 910 37 HOH HOH . G 3 HOH A 11 911 173 HOH HOH . G 3 HOH A 12 912 157 HOH HOH . G 3 HOH A 13 913 219 HOH HOH . G 3 HOH A 14 914 36 HOH HOH . G 3 HOH A 15 915 25 HOH HOH . G 3 HOH A 16 916 60 HOH HOH . G 3 HOH A 17 917 61 HOH HOH . G 3 HOH A 18 918 62 HOH HOH . G 3 HOH A 19 919 139 HOH HOH . G 3 HOH A 20 920 77 HOH HOH . G 3 HOH A 21 921 53 HOH HOH . G 3 HOH A 22 922 47 HOH HOH . G 3 HOH A 23 923 89 HOH HOH . G 3 HOH A 24 924 58 HOH HOH . G 3 HOH A 25 925 121 HOH HOH . G 3 HOH A 26 926 79 HOH HOH . G 3 HOH A 27 927 221 HOH HOH . G 3 HOH A 28 928 55 HOH HOH . G 3 HOH A 29 929 159 HOH HOH . G 3 HOH A 30 930 78 HOH HOH . G 3 HOH A 31 931 87 HOH HOH . G 3 HOH A 32 932 86 HOH HOH . G 3 HOH A 33 933 158 HOH HOH . G 3 HOH A 34 934 95 HOH HOH . G 3 HOH A 35 935 176 HOH HOH . G 3 HOH A 36 936 178 HOH HOH . G 3 HOH A 37 937 67 HOH HOH . G 3 HOH A 38 938 160 HOH HOH . G 3 HOH A 39 939 172 HOH HOH . G 3 HOH A 40 940 217 HOH HOH . G 3 HOH A 41 941 218 HOH HOH . G 3 HOH A 42 942 205 HOH HOH . G 3 HOH A 43 943 167 HOH HOH . G 3 HOH A 44 944 175 HOH HOH . G 3 HOH A 45 945 65 HOH HOH . G 3 HOH A 46 946 209 HOH HOH . G 3 HOH A 47 947 163 HOH HOH . G 3 HOH A 48 948 148 HOH HOH . G 3 HOH A 49 949 170 HOH HOH . G 3 HOH A 50 950 81 HOH HOH . G 3 HOH A 51 951 165 HOH HOH . G 3 HOH A 52 952 156 HOH HOH . G 3 HOH A 53 953 169 HOH HOH . G 3 HOH A 54 954 210 HOH HOH . G 3 HOH A 55 955 171 HOH HOH . G 3 HOH A 56 956 153 HOH HOH . G 3 HOH A 57 957 207 HOH HOH . G 3 HOH A 58 958 166 HOH HOH . G 3 HOH A 59 959 162 HOH HOH . G 3 HOH A 60 960 149 HOH HOH . G 3 HOH A 61 961 220 HOH HOH . G 3 HOH A 62 962 164 HOH HOH . G 3 HOH A 63 963 9 HOH HOH . G 3 HOH A 64 964 214 HOH HOH . G 3 HOH A 65 965 19 HOH HOH . G 3 HOH A 66 966 22 HOH HOH . G 3 HOH A 67 967 109 HOH HOH . G 3 HOH A 68 968 41 HOH HOH . G 3 HOH A 69 969 154 HOH HOH . G 3 HOH A 70 970 155 HOH HOH . H 3 HOH B 1 901 192 HOH HOH . H 3 HOH B 2 902 111 HOH HOH . H 3 HOH B 3 903 85 HOH HOH . H 3 HOH B 4 904 63 HOH HOH . H 3 HOH B 5 905 201 HOH HOH . H 3 HOH B 6 906 52 HOH HOH . H 3 HOH B 7 907 59 HOH HOH . H 3 HOH B 8 908 16 HOH HOH . H 3 HOH B 9 909 90 HOH HOH . H 3 HOH B 10 910 46 HOH HOH . H 3 HOH B 11 911 50 HOH HOH . H 3 HOH B 12 912 102 HOH HOH . H 3 HOH B 13 913 66 HOH HOH . H 3 HOH B 14 914 104 HOH HOH . H 3 HOH B 15 915 24 HOH HOH . H 3 HOH B 16 916 33 HOH HOH . H 3 HOH B 17 917 215 HOH HOH . H 3 HOH B 18 918 32 HOH HOH . H 3 HOH B 19 919 112 HOH HOH . H 3 HOH B 20 920 122 HOH HOH . H 3 HOH B 21 921 110 HOH HOH . H 3 HOH B 22 922 51 HOH HOH . H 3 HOH B 23 923 116 HOH HOH . H 3 HOH B 24 924 107 HOH HOH . H 3 HOH B 25 925 72 HOH HOH . H 3 HOH B 26 926 83 HOH HOH . H 3 HOH B 27 927 146 HOH HOH . H 3 HOH B 28 928 113 HOH HOH . H 3 HOH B 29 929 181 HOH HOH . H 3 HOH B 30 930 39 HOH HOH . H 3 HOH B 31 931 183 HOH HOH . H 3 HOH B 32 932 108 HOH HOH . H 3 HOH B 33 933 20 HOH HOH . H 3 HOH B 34 934 114 HOH HOH . H 3 HOH B 35 935 137 HOH HOH . H 3 HOH B 36 936 15 HOH HOH . H 3 HOH B 37 937 152 HOH HOH . H 3 HOH B 38 938 190 HOH HOH . H 3 HOH B 39 939 177 HOH HOH . H 3 HOH B 40 940 184 HOH HOH . H 3 HOH B 41 941 191 HOH HOH . H 3 HOH B 42 942 188 HOH HOH . H 3 HOH B 43 943 196 HOH HOH . H 3 HOH B 44 944 199 HOH HOH . H 3 HOH B 45 945 186 HOH HOH . H 3 HOH B 46 946 197 HOH HOH . H 3 HOH B 47 947 120 HOH HOH . H 3 HOH B 48 948 106 HOH HOH . H 3 HOH B 49 949 38 HOH HOH . H 3 HOH B 50 950 198 HOH HOH . H 3 HOH B 51 951 200 HOH HOH . H 3 HOH B 52 952 185 HOH HOH . H 3 HOH B 53 953 194 HOH HOH . H 3 HOH B 54 954 202 HOH HOH . H 3 HOH B 55 955 73 HOH HOH . H 3 HOH B 56 956 195 HOH HOH . H 3 HOH B 57 957 193 HOH HOH . H 3 HOH B 58 958 216 HOH HOH . H 3 HOH B 59 959 43 HOH HOH . H 3 HOH B 60 960 182 HOH HOH . H 3 HOH B 61 961 91 HOH HOH . H 3 HOH B 62 962 180 HOH HOH . H 3 HOH B 63 963 45 HOH HOH . H 3 HOH B 64 964 189 HOH HOH . H 3 HOH B 65 965 54 HOH HOH . H 3 HOH B 66 966 211 HOH HOH . H 3 HOH B 67 967 208 HOH HOH . H 3 HOH B 68 968 179 HOH HOH . H 3 HOH B 69 969 27 HOH HOH . H 3 HOH B 70 970 11 HOH HOH . H 3 HOH B 71 971 161 HOH HOH . H 3 HOH B 72 972 204 HOH HOH . H 3 HOH B 73 973 203 HOH HOH . H 3 HOH B 74 974 128 HOH HOH . H 3 HOH B 75 975 8 HOH HOH . H 3 HOH B 76 976 5 HOH HOH . H 3 HOH B 77 977 206 HOH HOH . H 3 HOH B 78 978 213 HOH HOH . H 3 HOH B 79 979 212 HOH HOH . H 3 HOH B 80 980 187 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 C10 8O3 . . . F 2 70.271 50.6 95.185 1 35.25 ? C10 8O3 802 B 1 HETATM 2 C C13 8O3 . . . F 2 71.018 52.337 96.868 1 35.32 ? C13 8O3 802 B 1 HETATM 3 C C17 8O3 . . . F 2 70.184 50.048 97.602 1 49.64 ? C17 8O3 802 B 1 HETATM 4 C C01 8O3 . . . F 2 67.747 48.909 88.77 1 37.01 ? C01 8O3 802 B 1 HETATM 5 C C02 8O3 . . . F 2 67.201 50.121 89.152 1 35.63 ? C02 8O3 802 B 1 HETATM 6 C C03 8O3 . . . F 2 67.506 50.673 90.381 1 30.31 ? C03 8O3 802 B 1 HETATM 7 C C04 8O3 . . . F 2 68.372 50.015 91.235 1 30.49 ? C04 8O3 802 B 1 HETATM 8 C C05 8O3 . . . F 2 68.92 48.798 90.855 1 30.35 ? C05 8O3 802 B 1 HETATM 9 C C06 8O3 . . . F 2 68.61 48.246 89.624 1 31.44 ? C06 8O3 802 B 1 HETATM 10 C C07 8O3 . . . F 2 68.712 50.621 92.597 1 33.68 ? C07 8O3 802 B 1 HETATM 11 C C08 8O3 . . . F 2 70.227 50.812 92.71 1 35.6 ? C08 8O3 802 B 1 HETATM 12 C C09 8O3 . . . F 2 70.568 51.528 94.014 1 38.68 ? C09 8O3 802 B 1 HETATM 13 N N11 8O3 . . . F 2 70.489 51.013 96.557 1 34.43 ? N11 8O3 802 B 1 HETATM 14 O O12 8O3 . . . F 2 69.841 49.514 94.979 1 39.79 ? O12 8O3 802 B 1 HETATM 15 C C14 8O3 . . . F 2 71.49 52.408 98.323 1 51.11 ? C14 8O3 802 B 1 HETATM 16 N N15 8O3 . . . F 2 70.88 51.562 99.33 1 49.31 ? N15 8O3 802 B 1 HETATM 17 C C16 8O3 . . . F 2 69.816 50.652 98.934 1 53.59 ? C16 8O3 802 B 1 HETATM 18 O O18 8O3 . . . F 2 72.362 53.154 98.625 1 52.7 ? O18 8O3 802 B 1 HETATM 19 N N19 8O3 . . . F 2 70.707 51.608 91.591 1 37.92 ? N19 8O3 802 B 1 HETATM 20 F F20 8O3 . . . F 2 69.152 47.051 89.251 1 31.33 ? F20 8O3 802 B 1 HETATM 21 F F21 8O3 . . . F 2 67.434 48.373 87.554 1 38.71 ? F21 8O3 802 B 1 HETATM 22 F F22 8O3 . . . F 2 66.961 51.867 90.753 1 35.36 ? F22 8O3 802 B 1 HETATM 23 H H132 8O3 . . . F 2 71.767 52.525 96.282 1 42.38 ? H132 8O3 802 B 1 HETATM 24 H H131 8O3 . . . F 2 70.323 52.999 96.726 1 42.38 ? H131 8O3 802 B 1 HETATM 25 H H171 8O3 . . . F 2 69.448 49.492 97.3 1 59.57 ? H171 8O3 802 B 1 HETATM 26 H H172 8O3 . . . F 2 70.963 49.486 97.73 1 59.57 ? H172 8O3 802 B 1 HETATM 27 H H021 8O3 . . . F 2 66.619 50.565 88.578 1 42.75 ? H021 8O3 802 B 1 HETATM 28 H H051 8O3 . . . F 2 69.501 48.352 91.429 1 36.42 ? H051 8O3 802 B 1 HETATM 29 H H071 8O3 . . . F 2 68.266 51.477 92.691 1 40.42 ? H071 8O3 802 B 1 HETATM 30 H H072 8O3 . . . F 2 68.41 50.023 93.299 1 40.42 ? H072 8O3 802 B 1 HETATM 31 H H1 8O3 . . . F 2 70.662 49.945 92.697 1 42.72 ? H1 8O3 802 B 1 HETATM 32 H H092 8O3 . . . F 2 71.51 51.757 94.018 1 46.41 ? H092 8O3 802 B 1 HETATM 33 H H091 8O3 . . . F 2 70.041 52.339 94.097 1 46.41 ? H091 8O3 802 B 1 HETATM 34 H H2 8O3 . . . F 2 71.143 51.597 100.148 1 59.17 ? H2 8O3 802 B 1 HETATM 35 H H161 8O3 . . . F 2 68.976 51.131 98.858 1 64.31 ? H161 8O3 802 B 1 HETATM 36 H H162 8O3 . . . F 2 69.732 49.947 99.595 1 64.31 ? H162 8O3 802 B 1 HETATM 37 H H3 8O3 . . . F 2 70.238 52.362 91.54 1 45.51 ? H3 8O3 802 B 1 HETATM 38 H H4 8O3 . . . F 2 70.611 51.147 90.836 1 45.51 ? H4 8O3 802 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 38 #