data_5OH1 # _model_server_result.job_id vfUqqDcCgkeI9ItRL98Xqw _model_server_result.datetime_utc '2024-11-05 10:29:29' _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 5oh1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":202}' # _entry.id 5OH1 # _exptl.entry_id 5OH1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 258.229 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-Thalidomide _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 5OH1 _cell.length_a 56.831 _cell.length_b 60.446 _cell.length_c 88.523 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OH1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,J 1 1 B,F,G,K 2 1 C,H,I,L 3 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 E N N ? 3 G 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 25 A CYS 24 1_555 D ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc2 A SG CYS 28 A CYS 27 1_555 D ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc3 A SG CYS 91 A CYS 90 1_555 D ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc4 A SG CYS 94 A CYS 93 1_555 D ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc5 B SG CYS 25 B CYS 24 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc6 B SG CYS 28 B CYS 27 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc7 B SG CYS 91 B CYS 90 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc8 B SG CYS 94 B CYS 93 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc9 C SG CYS 25 C CYS 24 1_555 H ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc10 C SG CYS 28 C CYS 27 1_555 H ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc11 C SG CYS 91 C CYS 90 1_555 H ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc12 C SG CYS 94 C CYS 93 1_555 H ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? # _chem_comp.formula 'C13 H10 N2 O4' _chem_comp.formula_weight 258.229 _chem_comp.id EF2 _chem_comp.mon_nstd_flag . _chem_comp.name S-Thalidomide _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 O01 C02 EF2 doub 117 n n C02 N03 EF2 sing 118 n n C02 C08 EF2 sing 119 n n N03 C04 EF2 sing 120 n n C04 O05 EF2 doub 121 n n C04 C06 EF2 sing 122 n n C06 C07 EF2 sing 123 n n C07 C08 EF2 sing 124 n n C08 N09 EF2 sing 125 n n N09 C3 EF2 sing 126 n n N09 C4 EF2 sing 127 n n C11 C12 EF2 sing 128 n y C11 C20 EF2 doub 129 n y C12 C13 EF2 doub 130 n y C13 C14 EF2 sing 131 n y C13 C4 EF2 sing 132 n n C14 C19 EF2 doub 133 n y C14 C3 EF2 sing 134 n n O16 C4 EF2 doub 135 n n O18 C3 EF2 doub 136 n n C19 C20 EF2 sing 137 n y N03 H03 EF2 sing 138 n n C08 H08 EF2 sing 139 n n C06 H061 EF2 sing 140 n n C06 H062 EF2 sing 141 n n C07 H071 EF2 sing 142 n n C07 H072 EF2 sing 143 n n C11 H11 EF2 sing 144 n n C12 H12 EF2 sing 145 n n C20 H20 EF2 sing 146 n n C19 H19 EF2 sing 147 n n # _atom_sites.entry_id 5OH1 _atom_sites.fract_transf_matrix[1][1] 0.017596 _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] 0.016544 _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] 0.011296 _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 D 2 ZN A 1 201 150 ZN ZN . E 3 EF2 A 1 202 151 EF2 EF2 . F 2 ZN B 1 201 150 ZN ZN . G 3 EF2 B 1 202 151 EF2 EF2 . H 2 ZN C 1 201 150 ZN ZN . I 4 9UQ C 1 202 151 9UQ A1M . J 5 HOH A 1 301 108 HOH HOH . J 5 HOH A 2 302 155 HOH HOH . J 5 HOH A 3 303 49 HOH HOH . J 5 HOH A 4 304 25 HOH HOH . J 5 HOH A 5 305 2 HOH HOH . J 5 HOH A 6 306 73 HOH HOH . J 5 HOH A 7 307 12 HOH HOH . J 5 HOH A 8 308 16 HOH HOH . J 5 HOH A 9 309 57 HOH HOH . J 5 HOH A 10 310 130 HOH HOH . J 5 HOH A 11 311 39 HOH HOH . J 5 HOH A 12 312 148 HOH HOH . J 5 HOH A 13 313 27 HOH HOH . J 5 HOH A 14 314 15 HOH HOH . J 5 HOH A 15 315 83 HOH HOH . J 5 HOH A 16 316 3 HOH HOH . J 5 HOH A 17 317 38 HOH HOH . J 5 HOH A 18 318 19 HOH HOH . J 5 HOH A 19 319 64 HOH HOH . J 5 HOH A 20 320 126 HOH HOH . J 5 HOH A 21 321 59 HOH HOH . J 5 HOH A 22 322 154 HOH HOH . J 5 HOH A 23 323 116 HOH HOH . J 5 HOH A 24 324 55 HOH HOH . J 5 HOH A 25 325 74 HOH HOH . J 5 HOH A 26 326 75 HOH HOH . J 5 HOH A 27 327 30 HOH HOH . J 5 HOH A 28 328 66 HOH HOH . J 5 HOH A 29 329 94 HOH HOH . J 5 HOH A 30 330 104 HOH HOH . J 5 HOH A 31 331 89 HOH HOH . J 5 HOH A 32 332 11 HOH HOH . J 5 HOH A 33 333 37 HOH HOH . J 5 HOH A 34 334 9 HOH HOH . J 5 HOH A 35 335 8 HOH HOH . J 5 HOH A 36 336 63 HOH HOH . J 5 HOH A 37 337 107 HOH HOH . J 5 HOH A 38 338 36 HOH HOH . J 5 HOH A 39 339 70 HOH HOH . J 5 HOH A 40 340 6 HOH HOH . J 5 HOH A 41 341 132 HOH HOH . J 5 HOH A 42 342 86 HOH HOH . J 5 HOH A 43 343 33 HOH HOH . J 5 HOH A 44 344 141 HOH HOH . J 5 HOH A 45 345 124 HOH HOH . J 5 HOH A 46 346 138 HOH HOH . J 5 HOH A 47 347 106 HOH HOH . J 5 HOH A 48 348 40 HOH HOH . J 5 HOH A 49 349 147 HOH HOH . J 5 HOH A 50 350 90 HOH HOH . J 5 HOH A 51 351 153 HOH HOH . J 5 HOH A 52 352 45 HOH HOH . J 5 HOH A 53 353 115 HOH HOH . J 5 HOH A 54 354 68 HOH HOH . J 5 HOH A 55 355 17 HOH HOH . J 5 HOH A 56 356 60 HOH HOH . J 5 HOH A 57 357 20 HOH HOH . J 5 HOH A 58 358 65 HOH HOH . J 5 HOH A 59 359 118 HOH HOH . J 5 HOH A 60 360 103 HOH HOH . J 5 HOH A 61 361 93 HOH HOH . J 5 HOH A 62 362 52 HOH HOH . J 5 HOH A 63 363 48 HOH HOH . K 5 HOH B 1 301 69 HOH HOH . K 5 HOH B 2 302 13 HOH HOH . K 5 HOH B 3 303 125 HOH HOH . K 5 HOH B 4 304 62 HOH HOH . K 5 HOH B 5 305 146 HOH HOH . K 5 HOH B 6 306 76 HOH HOH . K 5 HOH B 7 307 23 HOH HOH . K 5 HOH B 8 308 137 HOH HOH . K 5 HOH B 9 309 28 HOH HOH . K 5 HOH B 10 310 117 HOH HOH . K 5 HOH B 11 311 109 HOH HOH . K 5 HOH B 12 312 139 HOH HOH . K 5 HOH B 13 313 21 HOH HOH . K 5 HOH B 14 314 35 HOH HOH . K 5 HOH B 15 315 22 HOH HOH . K 5 HOH B 16 316 110 HOH HOH . K 5 HOH B 17 317 29 HOH HOH . K 5 HOH B 18 318 34 HOH HOH . K 5 HOH B 19 319 18 HOH HOH . K 5 HOH B 20 320 26 HOH HOH . K 5 HOH B 21 321 112 HOH HOH . K 5 HOH B 22 322 84 HOH HOH . K 5 HOH B 23 323 136 HOH HOH . K 5 HOH B 24 324 1 HOH HOH . K 5 HOH B 25 325 10 HOH HOH . K 5 HOH B 26 326 100 HOH HOH . K 5 HOH B 27 327 24 HOH HOH . K 5 HOH B 28 328 143 HOH HOH . K 5 HOH B 29 329 54 HOH HOH . K 5 HOH B 30 330 44 HOH HOH . K 5 HOH B 31 331 105 HOH HOH . K 5 HOH B 32 332 46 HOH HOH . K 5 HOH B 33 333 135 HOH HOH . K 5 HOH B 34 334 98 HOH HOH . K 5 HOH B 35 335 79 HOH HOH . K 5 HOH B 36 336 47 HOH HOH . K 5 HOH B 37 337 99 HOH HOH . K 5 HOH B 38 338 43 HOH HOH . K 5 HOH B 39 339 58 HOH HOH . K 5 HOH B 40 340 78 HOH HOH . K 5 HOH B 41 341 123 HOH HOH . K 5 HOH B 42 342 97 HOH HOH . K 5 HOH B 43 343 156 HOH HOH . K 5 HOH B 44 344 42 HOH HOH . K 5 HOH B 45 345 7 HOH HOH . K 5 HOH B 46 346 14 HOH HOH . K 5 HOH B 47 347 71 HOH HOH . K 5 HOH B 48 348 88 HOH HOH . K 5 HOH B 49 349 91 HOH HOH . K 5 HOH B 50 350 119 HOH HOH . K 5 HOH B 51 351 4 HOH HOH . K 5 HOH B 52 352 61 HOH HOH . K 5 HOH B 53 353 151 HOH HOH . K 5 HOH B 54 354 53 HOH HOH . K 5 HOH B 55 355 96 HOH HOH . K 5 HOH B 56 356 131 HOH HOH . L 5 HOH C 1 301 72 HOH HOH . L 5 HOH C 2 302 114 HOH HOH . L 5 HOH C 3 303 51 HOH HOH . L 5 HOH C 4 304 134 HOH HOH . L 5 HOH C 5 305 85 HOH HOH . L 5 HOH C 6 306 67 HOH HOH . L 5 HOH C 7 307 95 HOH HOH . L 5 HOH C 8 308 111 HOH HOH . L 5 HOH C 9 309 120 HOH HOH . L 5 HOH C 10 310 77 HOH HOH . L 5 HOH C 11 311 133 HOH HOH . L 5 HOH C 12 312 31 HOH HOH . L 5 HOH C 13 313 142 HOH HOH . L 5 HOH C 14 314 102 HOH HOH . L 5 HOH C 15 315 113 HOH HOH . L 5 HOH C 16 316 129 HOH HOH . L 5 HOH C 17 317 144 HOH HOH . L 5 HOH C 18 318 80 HOH HOH . L 5 HOH C 19 319 41 HOH HOH . L 5 HOH C 20 320 81 HOH HOH . L 5 HOH C 21 321 122 HOH HOH . L 5 HOH C 22 322 87 HOH HOH . L 5 HOH C 23 323 32 HOH HOH . L 5 HOH C 24 324 140 HOH HOH . L 5 HOH C 25 325 157 HOH HOH . L 5 HOH C 26 326 50 HOH HOH . L 5 HOH C 27 327 56 HOH HOH . L 5 HOH C 28 328 101 HOH HOH . L 5 HOH C 29 329 149 HOH HOH . L 5 HOH C 30 330 121 HOH HOH . L 5 HOH C 31 331 82 HOH HOH . L 5 HOH C 32 332 128 HOH HOH . L 5 HOH C 33 333 127 HOH HOH . L 5 HOH C 34 334 152 HOH HOH . L 5 HOH C 35 335 150 HOH HOH . L 5 HOH C 36 336 145 HOH HOH . L 5 HOH C 37 337 5 HOH HOH . L 5 HOH C 38 338 92 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 O01 EF2 . . . G 3 22.488 15.675 25.995 1 29.09 ? O01 EF2 202 B 1 HETATM 2 C C02 EF2 . . . G 3 23.088 14.667 26.321 1 32.13 ? C02 EF2 202 B 1 HETATM 3 N N03 EF2 . . . G 3 22.786 13.396 25.676 1 26.6 ? N03 EF2 202 B 1 HETATM 4 C C04 EF2 . . . G 3 23.466 12.163 26.01 1 22.01 ? C04 EF2 202 B 1 HETATM 5 O O05 EF2 . . . G 3 23.169 11.152 25.406 1 23.32 ? O05 EF2 202 B 1 HETATM 6 C C06 EF2 . . . G 3 24.55 12.226 27.082 1 23.93 ? C06 EF2 202 B 1 HETATM 7 C C07 EF2 . . . G 3 24.175 13.303 28.095 1 30.99 ? C07 EF2 202 B 1 HETATM 8 C C08 EF2 . . . G 3 24.188 14.646 27.379 1 35.84 ? C08 EF2 202 B 1 HETATM 9 N N09 EF2 . . . G 3 24.034 15.779 28.281 1 47.02 ? N09 EF2 202 B 1 HETATM 10 C C11 EF2 . . . G 3 22.784 19.349 31.05 1 72.36 ? C11 EF2 202 B 1 HETATM 11 C C12 EF2 . . . G 3 22.291 18.135 30.559 1 66.84 ? C12 EF2 202 B 1 HETATM 12 C C13 EF2 . . . G 3 23.11 17.394 29.71 1 54.34 ? C13 EF2 202 B 1 HETATM 13 C C14 EF2 . . . G 3 24.364 17.852 29.327 1 56.51 ? C14 EF2 202 B 1 HETATM 14 O O16 EF2 . . . G 3 21.714 15.27 29.141 1 44.31 ? O16 EF2 202 B 1 HETATM 15 O O18 EF2 . . . G 3 26.256 16.932 27.761 1 50.09 ? O18 EF2 202 B 1 HETATM 16 C C19 EF2 . . . G 3 24.848 19.075 29.783 1 71.72 ? C19 EF2 202 B 1 HETATM 17 C C20 EF2 . . . G 3 24.051 19.815 30.664 1 70.99 ? C20 EF2 202 B 1 HETATM 18 C C3 EF2 . . . G 3 24.93 16.933 28.307 1 56.95 ? C3 EF2 202 B 1 HETATM 19 C C4 EF2 . . . G 3 22.798 16.165 28.954 1 43.18 ? C4 EF2 202 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #