data_6JF4 # _model_server_result.job_id o78Yl1NldyuSeUwv2Bja4A _model_server_result.datetime_utc '2024-10-10 09:31:27' _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 6jf4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 6JF4 # _exptl.entry_id 6JF4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.409 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3R)-3-benzyl-4-oxo-4-[(2-oxo-2-phenylethyl)sulfanyl]butanoic acid' _entity.pdbx_number_of_molecules 2 _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 6JF4 _cell.length_a 40.967 _cell.length_b 77.351 _cell.length_c 96.582 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JF4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 ? 3 D N N ? 3 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 metalc ? metalc1 A SG CYS 102 B CYS 103 1_555 C ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc2 A NE2 HIS 144 B HIS 145 1_555 C ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc3 A NE2 HIS 148 B HIS 149 1_555 C ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc4 C ZN ZN . B ZN 201 1_555 D O2 K1U . B K1U 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc5 B SG CYS 102 A CYS 103 1_555 E ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc6 B NE2 HIS 144 A HIS 145 1_555 E ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc7 B NE2 HIS 148 A HIS 149 1_555 E ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc8 E ZN ZN . A ZN 201 1_555 F O1 K1U . A K1U 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.905 ? # _chem_comp.formula 'C19 H18 O4 S' _chem_comp.formula_weight 342.409 _chem_comp.id K1U _chem_comp.mon_nstd_flag . _chem_comp.name '(3R)-3-benzyl-4-oxo-4-[(2-oxo-2-phenylethyl)sulfanyl]butanoic acid' _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 O2 C8 K1U doub 173 n n C8 O1 K1U sing 174 n n C8 C24 K1U sing 175 n n C24 C9 K1U sing 176 n n C9 C1 K1U sing 177 n n C9 C10 K1U sing 178 n n C1 C2 K1U sing 179 n n C10 O3 K1U doub 180 n n C10 S1 K1U sing 181 n n C3 C2 K1U doub 182 n y C3 C4 K1U sing 183 n y C2 C7 K1U sing 184 n y S1 C11 K1U sing 185 n n C11 C12 K1U sing 186 n n C4 C5 K1U doub 187 n y C7 C6 K1U doub 188 n y C12 O4 K1U doub 189 n n C12 C13 K1U sing 190 n n C5 C6 K1U sing 191 n y C13 C18 K1U doub 192 n y C13 C14 K1U sing 193 n y C18 C17 K1U sing 194 n y C14 C15 K1U doub 195 n y C17 C16 K1U doub 196 n y C15 C16 K1U sing 197 n y O1 H1 K1U sing 198 n n C24 H2 K1U sing 199 n n C24 H3 K1U sing 200 n n C9 H4 K1U sing 201 n n C1 H5 K1U sing 202 n n C1 H6 K1U sing 203 n n C3 H7 K1U sing 204 n n C4 H8 K1U sing 205 n n C5 H9 K1U sing 206 n n C6 H10 K1U sing 207 n n C7 H11 K1U sing 208 n n C11 H12 K1U sing 209 n n C11 H13 K1U sing 210 n n C14 H14 K1U sing 211 n n C15 H15 K1U sing 212 n n C16 H16 K1U sing 213 n n C17 H17 K1U sing 214 n n C18 H18 K1U sing 215 n n # _atom_sites.entry_id 6JF4 _atom_sites.fract_transf_matrix[1][1] 0.02441 _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] 0.012928 _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] 0.010354 _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 ZN B 1 201 1 ZN ZN . D 3 K1U B 1 202 1 K1U K1U . E 2 ZN A 1 201 2 ZN ZN . F 3 K1U A 1 202 2 K1U K1U . G 4 HOH B 1 301 14 HOH HOH . G 4 HOH B 2 302 3 HOH HOH . G 4 HOH B 3 303 10 HOH HOH . G 4 HOH B 4 304 34 HOH HOH . G 4 HOH B 5 305 31 HOH HOH . G 4 HOH B 6 306 4 HOH HOH . G 4 HOH B 7 307 22 HOH HOH . G 4 HOH B 8 308 6 HOH HOH . G 4 HOH B 9 309 15 HOH HOH . G 4 HOH B 10 310 7 HOH HOH . G 4 HOH B 11 311 11 HOH HOH . G 4 HOH B 12 312 32 HOH HOH . G 4 HOH B 13 313 2 HOH HOH . G 4 HOH B 14 314 1 HOH HOH . G 4 HOH B 15 315 37 HOH HOH . G 4 HOH B 16 316 19 HOH HOH . G 4 HOH B 17 317 27 HOH HOH . G 4 HOH B 18 318 17 HOH HOH . G 4 HOH B 19 319 33 HOH HOH . G 4 HOH B 20 320 41 HOH HOH . G 4 HOH B 21 321 18 HOH HOH . G 4 HOH B 22 322 44 HOH HOH . G 4 HOH B 23 323 23 HOH HOH . G 4 HOH B 24 324 36 HOH HOH . G 4 HOH B 25 325 25 HOH HOH . G 4 HOH B 26 326 29 HOH HOH . G 4 HOH B 27 327 38 HOH HOH . G 4 HOH B 28 328 21 HOH HOH . G 4 HOH B 29 329 30 HOH HOH . H 4 HOH A 1 301 40 HOH HOH . H 4 HOH A 2 302 9 HOH HOH . H 4 HOH A 3 303 8 HOH HOH . H 4 HOH A 4 304 28 HOH HOH . H 4 HOH A 5 305 43 HOH HOH . H 4 HOH A 6 306 26 HOH HOH . H 4 HOH A 7 307 45 HOH HOH . H 4 HOH A 8 308 16 HOH HOH . H 4 HOH A 9 309 13 HOH HOH . H 4 HOH A 10 310 5 HOH HOH . H 4 HOH A 11 311 46 HOH HOH . H 4 HOH A 12 312 42 HOH HOH . H 4 HOH A 13 313 12 HOH HOH . H 4 HOH A 14 314 24 HOH HOH . H 4 HOH A 15 315 20 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 O1 K1U . . . D 3 -0.726 -2.611 -1.32 1 27.33 ? O1 K1U 202 B 1 HETATM 2 C C8 K1U . . . D 3 -1.237 -1.453 -1.527 1 25.63 ? C8 K1U 202 B 1 HETATM 3 O O2 K1U . . . D 3 -2.188 -1.495 -2.195 1 25.66 ? O2 K1U 202 B 1 HETATM 4 C C24 K1U . . . D 3 -0.596 -0.194 -0.983 1 34.35 ? C24 K1U 202 B 1 HETATM 5 C C9 K1U . . . D 3 -0.918 0.085 0.47 1 38.64 ? C9 K1U 202 B 1 HETATM 6 C C1 K1U . . . D 3 -0.55 -0.967 1.529 1 36.37 ? C1 K1U 202 B 1 HETATM 7 C C2 K1U . . . D 3 -1.212 -0.976 2.917 1 36.02 ? C2 K1U 202 B 1 HETATM 8 C C3 K1U . . . D 3 -1.514 0.161 3.66 1 35.79 ? C3 K1U 202 B 1 HETATM 9 C C4 K1U . . . D 3 -2.069 0.053 4.92 1 33.51 ? C4 K1U 202 B 1 HETATM 10 C C5 K1U . . . D 3 -2.358 -1.195 5.485 1 36.21 ? C5 K1U 202 B 1 HETATM 11 C C6 K1U . . . D 3 -2.094 -2.34 4.766 1 33.46 ? C6 K1U 202 B 1 HETATM 12 C C7 K1U . . . D 3 -1.509 -2.202 3.502 1 34.86 ? C7 K1U 202 B 1 HETATM 13 C C10 K1U . . . D 3 -0.736 1.557 0.752 1 48.01 ? C10 K1U 202 B 1 HETATM 14 O O3 K1U . . . D 3 0.419 1.926 0.842 1 45.65 ? O3 K1U 202 B 1 HETATM 15 S S1 K1U . . . D 3 -2.026 2.634 0.852 1 65.79 ? S1 K1U 202 B 1 HETATM 16 C C11 K1U . . . D 3 -1.674 4.276 1.431 1 71.88 ? C11 K1U 202 B 1 HETATM 17 C C12 K1U . . . D 3 -0.832 4.321 2.697 1 76.44 ? C12 K1U 202 B 1 HETATM 18 O O4 K1U . . . D 3 0.373 4.496 2.598 1 83.67 ? O4 K1U 202 B 1 HETATM 19 C C13 K1U . . . D 3 -1.423 4.214 4.074 1 75.13 ? C13 K1U 202 B 1 HETATM 20 C C14 K1U . . . D 3 -2.737 3.772 4.271 1 78.76 ? C14 K1U 202 B 1 HETATM 21 C C15 K1U . . . D 3 -3.271 3.697 5.565 1 79.36 ? C15 K1U 202 B 1 HETATM 22 C C16 K1U . . . D 3 -2.486 4.061 6.657 1 79.76 ? C16 K1U 202 B 1 HETATM 23 C C17 K1U . . . D 3 -1.174 4.51 6.453 1 77.32 ? C17 K1U 202 B 1 HETATM 24 C C18 K1U . . . D 3 -0.64 4.587 5.171 1 71.45 ? C18 K1U 202 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #