data_4ERU # _model_server_result.job_id bpNr1cTSVVVvJyC7tjeUXQ _model_server_result.datetime_utc '2025-03-13 21:10:49' _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 4eru # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 4ERU # _exptl.entry_id 4ERU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 134.087 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description D-MALATE _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 4ERU _cell.length_a 107.138 _cell.length_b 107.138 _cell.length_c 59.935 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ERU _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _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,I,J _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 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 covale ? covale1 A C ALA 3 A ALA 0 1_555 A N MSE 4 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A C MSE 4 A MSE 1 1_555 A N ASN 5 A ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 A C ARG 75 A ARG 72 1_555 A N MSE 76 A MSE 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 A C MSE 76 A MSE 73 1_555 A N LYS 77 A LYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 A C ALA 80 A ALA 77 1_555 A N MSE 81 A MSE 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale6 A C MSE 81 A MSE 78 1_555 A N GLU 82 A GLU 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale7 B C MSE 4 B MSE 1 1_555 B N ASN 5 B ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale8 B C ARG 75 B ARG 72 1_555 B N MSE 76 B MSE 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale9 B C MSE 76 B MSE 73 1_555 B N LYS 77 B LYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale10 B C ALA 80 B ALA 77 1_555 B N MSE 81 B MSE 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale11 B C MSE 81 B MSE 78 1_555 B N GLU 82 B GLU 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 A OE1 GLU 24 A GLU 21 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc2 A OE2 GLU 24 A GLU 21 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc3 A OE1 GLN 57 A GLN 54 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc4 A OE2 GLU 113 A GLU 110 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc5 A OE1 GLU 116 A GLU 113 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc6 A OE1 GLU 146 A GLU 143 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc7 A OE2 GLU 146 A GLU 143 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc8 D MG MG . A MG 202 1_555 I O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc9 E MG MG . A MG 203 1_555 I O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc10 B OE2 GLU 24 B GLU 21 1_555 G MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc11 B OE1 GLU 24 B GLU 21 1_555 G MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc12 B OE1 GLN 57 B GLN 54 1_555 G MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc13 B OE2 GLU 113 B GLU 110 1_555 H MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc14 B OE1 GLU 116 B GLU 113 1_555 G MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.856 ? metalc ? metalc15 B OE1 GLU 116 B GLU 113 1_555 H MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc16 B OE1 GLU 146 B GLU 143 1_555 G MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc17 B OE2 GLU 146 B GLU 143 1_555 H MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc18 G MG MG . B MG 202 1_555 J O HOH . B HOH 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc19 H MG MG . B MG 203 1_555 J O HOH . B HOH 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? # _chem_comp.formula 'C4 H6 O5' _chem_comp.formula_weight 134.087 _chem_comp.id MLT _chem_comp.mon_nstd_flag . _chem_comp.name D-MALATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(2R)-2-HYDROXYBUTANEDIOIC ACID;2-HYDROXY-SUCCINIC ACID' # 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 O1 MLT doub 218 n n C1 O2 MLT sing 219 n n C1 C2 MLT sing 220 n n C2 O3 MLT sing 221 n n C2 C3 MLT sing 222 n n C2 H2 MLT sing 223 n n O3 HO3 MLT sing 224 n n C3 C4 MLT sing 225 n n C3 H31 MLT sing 226 n n C3 H32 MLT sing 227 n n C4 O4 MLT doub 228 n n C4 O5 MLT sing 229 n n O5 HO5 MLT sing 230 n n O2 H6 MLT sing 231 n n # _atom_sites.entry_id 4ERU _atom_sites.fract_transf_matrix[1][1] 0.009334 _atom_sites.fract_transf_matrix[1][2] 0.005389 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010778 _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] 0.016685 _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 MLT A 1 201 171 MLT MLT . D 3 MG A 1 202 172 MG MG . E 3 MG A 1 203 173 MG MG . F 2 MLT B 1 201 171 MLT MLT . G 3 MG B 1 202 172 MG MG . H 3 MG B 1 203 173 MG MG . I 4 HOH A 1 301 1 HOH HOH . I 4 HOH A 2 302 2 HOH HOH . I 4 HOH A 3 303 3 HOH HOH . I 4 HOH A 4 304 4 HOH HOH . I 4 HOH A 5 305 5 HOH HOH . I 4 HOH A 6 306 6 HOH HOH . I 4 HOH A 7 307 14 HOH HOH . I 4 HOH A 8 308 15 HOH HOH . I 4 HOH A 9 309 17 HOH HOH . I 4 HOH A 10 310 19 HOH HOH . I 4 HOH A 11 311 20 HOH HOH . I 4 HOH A 12 312 22 HOH HOH . I 4 HOH A 13 313 23 HOH HOH . I 4 HOH A 14 314 27 HOH HOH . I 4 HOH A 15 315 34 HOH HOH . I 4 HOH A 16 316 36 HOH HOH . I 4 HOH A 17 317 39 HOH HOH . I 4 HOH A 18 318 40 HOH HOH . I 4 HOH A 19 319 43 HOH HOH . I 4 HOH A 20 320 47 HOH HOH . I 4 HOH A 21 321 50 HOH HOH . I 4 HOH A 22 322 55 HOH HOH . I 4 HOH A 23 323 56 HOH HOH . I 4 HOH A 24 324 57 HOH HOH . I 4 HOH A 25 325 59 HOH HOH . I 4 HOH A 26 326 62 HOH HOH . I 4 HOH A 27 327 63 HOH HOH . I 4 HOH A 28 328 65 HOH HOH . I 4 HOH A 29 329 70 HOH HOH . I 4 HOH A 30 330 72 HOH HOH . I 4 HOH A 31 331 82 HOH HOH . I 4 HOH A 32 332 83 HOH HOH . I 4 HOH A 33 333 84 HOH HOH . I 4 HOH A 34 334 85 HOH HOH . I 4 HOH A 35 335 87 HOH HOH . I 4 HOH A 36 336 88 HOH HOH . I 4 HOH A 37 337 90 HOH HOH . I 4 HOH A 38 338 91 HOH HOH . I 4 HOH A 39 339 92 HOH HOH . I 4 HOH A 40 340 93 HOH HOH . I 4 HOH A 41 341 94 HOH HOH . I 4 HOH A 42 342 95 HOH HOH . I 4 HOH A 43 343 96 HOH HOH . I 4 HOH A 44 344 97 HOH HOH . I 4 HOH A 45 345 98 HOH HOH . I 4 HOH A 46 346 99 HOH HOH . I 4 HOH A 47 347 100 HOH HOH . I 4 HOH A 48 348 101 HOH HOH . I 4 HOH A 49 349 115 HOH HOH . I 4 HOH A 50 350 118 HOH HOH . J 4 HOH B 1 301 7 HOH HOH . J 4 HOH B 2 302 8 HOH HOH . J 4 HOH B 3 303 9 HOH HOH . J 4 HOH B 4 304 10 HOH HOH . J 4 HOH B 5 305 11 HOH HOH . J 4 HOH B 6 306 12 HOH HOH . J 4 HOH B 7 307 13 HOH HOH . J 4 HOH B 8 308 16 HOH HOH . J 4 HOH B 9 309 18 HOH HOH . J 4 HOH B 10 310 21 HOH HOH . J 4 HOH B 11 311 24 HOH HOH . J 4 HOH B 12 312 25 HOH HOH . J 4 HOH B 13 313 26 HOH HOH . J 4 HOH B 14 314 28 HOH HOH . J 4 HOH B 15 315 29 HOH HOH . J 4 HOH B 16 316 30 HOH HOH . J 4 HOH B 17 317 31 HOH HOH . J 4 HOH B 18 318 32 HOH HOH . J 4 HOH B 19 319 33 HOH HOH . J 4 HOH B 20 320 35 HOH HOH . J 4 HOH B 21 321 37 HOH HOH . J 4 HOH B 22 322 38 HOH HOH . J 4 HOH B 23 323 41 HOH HOH . J 4 HOH B 24 324 42 HOH HOH . J 4 HOH B 25 325 44 HOH HOH . J 4 HOH B 26 326 45 HOH HOH . J 4 HOH B 27 327 46 HOH HOH . J 4 HOH B 28 328 48 HOH HOH . J 4 HOH B 29 329 49 HOH HOH . J 4 HOH B 30 330 51 HOH HOH . J 4 HOH B 31 331 52 HOH HOH . J 4 HOH B 32 332 53 HOH HOH . J 4 HOH B 33 333 54 HOH HOH . J 4 HOH B 34 334 58 HOH HOH . J 4 HOH B 35 335 60 HOH HOH . J 4 HOH B 36 336 61 HOH HOH . J 4 HOH B 37 337 64 HOH HOH . J 4 HOH B 38 338 66 HOH HOH . J 4 HOH B 39 339 67 HOH HOH . J 4 HOH B 40 340 68 HOH HOH . J 4 HOH B 41 341 69 HOH HOH . J 4 HOH B 42 342 71 HOH HOH . J 4 HOH B 43 343 73 HOH HOH . J 4 HOH B 44 344 74 HOH HOH . J 4 HOH B 45 345 75 HOH HOH . J 4 HOH B 46 346 76 HOH HOH . J 4 HOH B 47 347 77 HOH HOH . J 4 HOH B 48 348 78 HOH HOH . J 4 HOH B 49 349 79 HOH HOH . J 4 HOH B 50 350 80 HOH HOH . J 4 HOH B 51 351 81 HOH HOH . J 4 HOH B 52 352 86 HOH HOH . J 4 HOH B 53 353 89 HOH HOH . J 4 HOH B 54 354 102 HOH HOH . J 4 HOH B 55 355 103 HOH HOH . J 4 HOH B 56 356 104 HOH HOH . J 4 HOH B 57 357 105 HOH HOH . J 4 HOH B 58 358 106 HOH HOH . J 4 HOH B 59 359 107 HOH HOH . J 4 HOH B 60 360 108 HOH HOH . J 4 HOH B 61 361 109 HOH HOH . J 4 HOH B 62 362 110 HOH HOH . J 4 HOH B 63 363 111 HOH HOH . J 4 HOH B 64 364 112 HOH HOH . J 4 HOH B 65 365 113 HOH HOH . J 4 HOH B 66 366 114 HOH HOH . J 4 HOH B 67 367 116 HOH HOH . J 4 HOH B 68 368 117 HOH HOH . J 4 HOH B 69 369 119 HOH HOH . J 4 HOH B 70 370 120 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 MLT . . . F 2 -16.66 89.568 2.687 1 64.65 ? C1 MLT 201 B 1 HETATM 2 O O1 MLT . . . F 2 -17.71 89.965 3.24 1 67.33 ? O1 MLT 201 B 1 HETATM 3 O O2 MLT . . . F 2 -15.654 89.231 3.37 1 57.6 ? O2 MLT 201 B 1 HETATM 4 C C2 MLT . . . F 2 -16.616 89.473 1.183 1 68.42 ? C2 MLT 201 B 1 HETATM 5 O O3 MLT . . . F 2 -15.332 88.974 0.839 1 73.47 ? O3 MLT 201 B 1 HETATM 6 C C3 MLT . . . F 2 -16.906 90.812 0.495 1 61.87 ? C3 MLT 201 B 1 HETATM 7 C C4 MLT . . . F 2 -16.161 90.804 -0.835 1 57.41 ? C4 MLT 201 B 1 HETATM 8 O O4 MLT . . . F 2 -14.912 91.01 -0.878 1 55.56 ? O4 MLT 201 B 1 HETATM 9 O O5 MLT . . . F 2 -16.776 90.581 -1.909 1 47.86 ? O5 MLT 201 B 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 9 #