data_5J6F # _model_server_result.job_id 5CVxuYg_oVYr0gPRU3tv4w _model_server_result.datetime_utc '2024-12-13 15:35:22' _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 5j6f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":404}' # _entry.id 5J6F # _exptl.entry_id 5J6F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 226.183 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PREPHENIC 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 120 _cell.entry_id 5J6F _cell.length_a 95.438 _cell.length_b 95.438 _cell.length_c 167.452 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5J6F _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -47.719 82.651732 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 J 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 126 A CYS 126 1_555 C MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? metalc ? metalc2 A NE2 HIS 296 A HIS 296 1_555 C MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc3 A OE1 GLU 322 A GLU 322 1_555 C MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc4 A OE2 GLU 322 A GLU 322 1_555 C MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc5 B SG CYS 126 B CYS 126 1_555 G MN MN . B MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc6 B NE2 HIS 296 B HIS 296 1_555 G MN MN . B MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc7 B OE1 GLU 322 B GLU 322 1_555 G MN MN . B MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc8 B OE2 GLU 322 B GLU 322 1_555 G MN MN . B MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc9 B OD2 ASP 333 B ASP 333 1_555 G MN MN . B MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? # _chem_comp.formula 'C10 H10 O6' _chem_comp.formula_weight 226.183 _chem_comp.id PRE _chem_comp.mon_nstd_flag . _chem_comp.name 'PREPHENIC 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 C1 C2 PRE sing 258 n n C1 C6 PRE sing 259 n n C1 C7 PRE sing 260 n n C1 C8 PRE sing 261 n n C2 C3 PRE doub 262 n n C2 H2 PRE sing 263 n n C3 C4 PRE sing 264 n n C3 H3 PRE sing 265 n n C4 O4 PRE sing 266 n n C4 C5 PRE sing 267 n n C4 H4 PRE sing 268 n n O4 HO4 PRE sing 269 n n C5 C6 PRE doub 270 n n C5 H5 PRE sing 271 n n C6 H6 PRE sing 272 n n C7 O71 PRE doub 273 n n C7 O72 PRE sing 274 n n O72 HO72 PRE sing 275 n n C8 C1' PRE sing 276 n n C8 H81 PRE sing 277 n n C8 H82 PRE sing 278 n n C1' O1' PRE doub 279 n n C1' C2' PRE sing 280 n n C2' "O'L" PRE doub 281 n n C2' "O'M" PRE sing 282 n n "O'M" HO2' PRE sing 283 n n # _atom_sites.entry_id 5J6F _atom_sites.fract_transf_matrix[1][1] 0.010478 _atom_sites.fract_transf_matrix[1][2] 0.006049 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012099 _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] 0.005972 _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 MN A 1 401 1354 MN MN . D 3 SO4 A 1 402 1 SO4 SO4 . E 3 SO4 A 1 403 2 SO4 SO4 . F 4 PRE A 1 404 2 PRE PRE . G 2 MN B 1 401 1355 MN MN . H 3 SO4 B 1 402 3 SO4 SO4 . I 3 SO4 B 1 403 4 SO4 SO4 . J 4 PRE B 1 404 1 PRE PRE . # 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 PRE . . . J 4 -0.093 62.884 40.465 1 80.71 ? C1 PRE 404 B 1 HETATM 2 C C2 PRE . . . J 4 -1.099 61.882 40.454 1 75.63 ? C2 PRE 404 B 1 HETATM 3 C C3 PRE . . . J 4 -2.325 62.114 40.997 1 69.18 ? C3 PRE 404 B 1 HETATM 4 C C4 PRE . . . J 4 -2.637 63.445 41.568 1 69.26 ? C4 PRE 404 B 1 HETATM 5 O O4 PRE . . . J 4 -4.026 63.698 41.397 1 76.78 ? O4 PRE 404 B 1 HETATM 6 C C5 PRE . . . J 4 -1.808 64.503 40.944 1 63.25 ? C5 PRE 404 B 1 HETATM 7 C C6 PRE . . . J 4 -0.702 64.142 40.238 1 70.58 ? C6 PRE 404 B 1 HETATM 8 C C7 PRE . . . J 4 0.823 62.699 39.289 1 86.91 ? C7 PRE 404 B 1 HETATM 9 O O71 PRE . . . J 4 0.326 61.697 38.902 1 84.03 -1 O71 PRE 404 B 1 HETATM 10 O O72 PRE . . . J 4 1.56 63.624 39.327 1 82.54 ? O72 PRE 404 B 1 HETATM 11 C C8 PRE . . . J 4 0.866 62.811 41.61 1 79.3 ? C8 PRE 404 B 1 HETATM 12 C C1' PRE . . . J 4 0.503 63.54 42.885 1 84.3 ? C1' PRE 404 B 1 HETATM 13 O O1' PRE . . . J 4 -0.11 63.02 43.811 1 80.48 ? O1' PRE 404 B 1 HETATM 14 C C2' PRE . . . J 4 0.906 65.032 42.979 1 82.33 ? C2' PRE 404 B 1 HETATM 15 O "O'L" PRE . . . J 4 1.772 65.518 42.204 1 79.37 ? "O'L" PRE 404 B 1 HETATM 16 O "O'M" PRE . . . J 4 0.311 65.698 43.858 1 71.26 -1 "O'M" PRE 404 B 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 16 #