data_5TWK # _model_server_result.job_id 9JUxY1nReBSbz_ipFHIa2g _model_server_result.datetime_utc '2024-11-22 20:22:27' _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 5twk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":201}' # _entry.id 5TWK # _exptl.entry_id 5TWK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 381.387 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SINEFUNGIN _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 105.74 _cell.angle_gamma 90 _cell.entry_id 5TWK _cell.length_a 66.37 _cell.length_b 37.95 _cell.length_c 121.82 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TWK _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,I,J 1 1 C,D,G,H,K,L 2 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 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C15 H23 N7 O5' _chem_comp.formula_weight 381.387 _chem_comp.id SFG _chem_comp.mon_nstd_flag . _chem_comp.name SINEFUNGIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ADENOSYL-ORNITHINE # 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 N CA SFG sing 290 n n N HN1 SFG sing 291 n n N HN2 SFG sing 292 n n CA C SFG sing 293 n n CA CB SFG sing 294 n n CA HA SFG sing 295 n n C O SFG doub 296 n n C OXT SFG sing 297 n n OXT HXT SFG sing 298 n n CB CG SFG sing 299 n n CB HB1 SFG sing 300 n n CB HB2 SFG sing 301 n n CG CD SFG sing 302 n n CG HG1 SFG sing 303 n n CG HG2 SFG sing 304 n n CD NE SFG sing 305 n n CD C5' SFG sing 306 n n CD HD SFG sing 307 n n NE HNE1 SFG sing 308 n n NE HNE2 SFG sing 309 n n C5' C4' SFG sing 310 n n C5' "H5'1" SFG sing 311 n n C5' "H5'2" SFG sing 312 n n C4' O4' SFG sing 313 n n C4' C3' SFG sing 314 n n C4' H4' SFG sing 315 n n O4' C1' SFG sing 316 n n C3' O3' SFG sing 317 n n C3' C2' SFG sing 318 n n C3' H3' SFG sing 319 n n O3' HO3' SFG sing 320 n n C2' O2' SFG sing 321 n n C2' C1' SFG sing 322 n n C2' H2' SFG sing 323 n n O2' HO2' SFG sing 324 n n C1' N9 SFG sing 325 n n C1' H1' SFG sing 326 n n N9 C8 SFG sing 327 n y N9 C4 SFG sing 328 n y C8 N7 SFG doub 329 n y C8 H8 SFG sing 330 n n N7 C5 SFG sing 331 n y C5 C6 SFG sing 332 n y C5 C4 SFG doub 333 n y C6 N6 SFG sing 334 n n C6 N1 SFG doub 335 n y N6 HN61 SFG sing 336 n n N6 HN62 SFG sing 337 n n N1 C2 SFG sing 338 n y C2 N3 SFG doub 339 n y C2 H2 SFG sing 340 n n N3 C4 SFG sing 341 n y # _atom_sites.entry_id 5TWK _atom_sites.fract_transf_matrix[1][1] 0.015067 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004247 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02635 _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] 0.008529 _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 E 2 SFG C 1 201 2 SFG SFG . F 2 SFG D 1 201 4 SFG SFG . G 2 SFG A 1 201 3 SFG SFG . H 2 SFG B 1 201 1 SFG SFG . I 3 HOH C 1 301 71 HOH HOH . I 3 HOH C 2 302 266 HOH HOH . I 3 HOH C 3 303 310 HOH HOH . I 3 HOH C 4 304 285 HOH HOH . I 3 HOH C 5 305 24 HOH HOH . I 3 HOH C 6 306 79 HOH HOH . I 3 HOH C 7 307 69 HOH HOH . I 3 HOH C 8 308 114 HOH HOH . I 3 HOH C 9 309 137 HOH HOH . I 3 HOH C 10 310 134 HOH HOH . I 3 HOH C 11 311 56 HOH HOH . I 3 HOH C 12 312 106 HOH HOH . I 3 HOH C 13 313 156 HOH HOH . I 3 HOH C 14 314 267 HOH HOH . I 3 HOH C 15 315 25 HOH HOH . I 3 HOH C 16 316 6 HOH HOH . I 3 HOH C 17 317 243 HOH HOH . I 3 HOH C 18 318 41 HOH HOH . I 3 HOH C 19 319 18 HOH HOH . I 3 HOH C 20 320 250 HOH HOH . I 3 HOH C 21 321 108 HOH HOH . I 3 HOH C 22 322 32 HOH HOH . I 3 HOH C 23 323 256 HOH HOH . I 3 HOH C 24 324 185 HOH HOH . I 3 HOH C 25 325 234 HOH HOH . I 3 HOH C 26 326 37 HOH HOH . I 3 HOH C 27 327 172 HOH HOH . I 3 HOH C 28 328 216 HOH HOH . I 3 HOH C 29 329 145 HOH HOH . I 3 HOH C 30 330 284 HOH HOH . I 3 HOH C 31 331 294 HOH HOH . I 3 HOH C 32 332 193 HOH HOH . I 3 HOH C 33 333 57 HOH HOH . I 3 HOH C 34 334 342 HOH HOH . I 3 HOH C 35 335 318 HOH HOH . I 3 HOH C 36 336 51 HOH HOH . I 3 HOH C 37 337 136 HOH HOH . I 3 HOH C 38 338 155 HOH HOH . I 3 HOH C 39 339 287 HOH HOH . I 3 HOH C 40 340 119 HOH HOH . I 3 HOH C 41 341 264 HOH HOH . I 3 HOH C 42 342 146 HOH HOH . I 3 HOH C 43 343 198 HOH HOH . J 3 HOH D 1 301 291 HOH HOH . J 3 HOH D 2 302 280 HOH HOH . J 3 HOH D 3 303 293 HOH HOH . J 3 HOH D 4 304 184 HOH HOH . J 3 HOH D 5 305 158 HOH HOH . J 3 HOH D 6 306 17 HOH HOH . J 3 HOH D 7 307 75 HOH HOH . J 3 HOH D 8 308 335 HOH HOH . J 3 HOH D 9 309 246 HOH HOH . J 3 HOH D 10 310 228 HOH HOH . J 3 HOH D 11 311 80 HOH HOH . J 3 HOH D 12 312 229 HOH HOH . J 3 HOH D 13 313 341 HOH HOH . J 3 HOH D 14 314 166 HOH HOH . J 3 HOH D 15 315 9 HOH HOH . J 3 HOH D 16 316 43 HOH HOH . J 3 HOH D 17 317 343 HOH HOH . J 3 HOH D 18 318 10 HOH HOH . J 3 HOH D 19 319 50 HOH HOH . J 3 HOH D 20 320 328 HOH HOH . J 3 HOH D 21 321 5 HOH HOH . J 3 HOH D 22 322 271 HOH HOH . J 3 HOH D 23 323 265 HOH HOH . J 3 HOH D 24 324 8 HOH HOH . J 3 HOH D 25 325 78 HOH HOH . J 3 HOH D 26 326 340 HOH HOH . J 3 HOH D 27 327 40 HOH HOH . J 3 HOH D 28 328 20 HOH HOH . J 3 HOH D 29 329 91 HOH HOH . J 3 HOH D 30 330 85 HOH HOH . J 3 HOH D 31 331 165 HOH HOH . J 3 HOH D 32 332 210 HOH HOH . J 3 HOH D 33 333 21 HOH HOH . J 3 HOH D 34 334 63 HOH HOH . J 3 HOH D 35 335 211 HOH HOH . J 3 HOH D 36 336 299 HOH HOH . J 3 HOH D 37 337 279 HOH HOH . J 3 HOH D 38 338 58 HOH HOH . J 3 HOH D 39 339 87 HOH HOH . J 3 HOH D 40 340 86 HOH HOH . J 3 HOH D 41 341 83 HOH HOH . J 3 HOH D 42 342 191 HOH HOH . J 3 HOH D 43 343 334 HOH HOH . J 3 HOH D 44 344 151 HOH HOH . J 3 HOH D 45 345 325 HOH HOH . J 3 HOH D 46 346 203 HOH HOH . J 3 HOH D 47 347 269 HOH HOH . J 3 HOH D 48 348 254 HOH HOH . J 3 HOH D 49 349 338 HOH HOH . J 3 HOH D 50 350 154 HOH HOH . J 3 HOH D 51 351 283 HOH HOH . J 3 HOH D 52 352 42 HOH HOH . J 3 HOH D 53 353 322 HOH HOH . J 3 HOH D 54 354 263 HOH HOH . J 3 HOH D 55 355 110 HOH HOH . K 3 HOH A 1 301 14 HOH HOH . K 3 HOH A 2 302 196 HOH HOH . K 3 HOH A 3 303 138 HOH HOH . K 3 HOH A 4 304 98 HOH HOH . K 3 HOH A 5 305 261 HOH HOH . K 3 HOH A 6 306 81 HOH HOH . K 3 HOH A 7 307 31 HOH HOH . K 3 HOH A 8 308 197 HOH HOH . K 3 HOH A 9 309 44 HOH HOH . K 3 HOH A 10 310 326 HOH HOH . K 3 HOH A 11 311 67 HOH HOH . K 3 HOH A 12 312 11 HOH HOH . K 3 HOH A 13 313 128 HOH HOH . K 3 HOH A 14 314 121 HOH HOH . K 3 HOH A 15 315 111 HOH HOH . K 3 HOH A 16 316 1 HOH HOH . K 3 HOH A 17 317 92 HOH HOH . K 3 HOH A 18 318 35 HOH HOH . K 3 HOH A 19 319 13 HOH HOH . K 3 HOH A 20 320 100 HOH HOH . K 3 HOH A 21 321 227 HOH HOH . K 3 HOH A 22 322 16 HOH HOH . K 3 HOH A 23 323 233 HOH HOH . K 3 HOH A 24 324 127 HOH HOH . K 3 HOH A 25 325 125 HOH HOH . K 3 HOH A 26 326 177 HOH HOH . K 3 HOH A 27 327 2 HOH HOH . K 3 HOH A 28 328 65 HOH HOH . K 3 HOH A 29 329 259 HOH HOH . K 3 HOH A 30 330 26 HOH HOH . K 3 HOH A 31 331 179 HOH HOH . K 3 HOH A 32 332 181 HOH HOH . K 3 HOH A 33 333 183 HOH HOH . K 3 HOH A 34 334 46 HOH HOH . K 3 HOH A 35 335 286 HOH HOH . K 3 HOH A 36 336 105 HOH HOH . K 3 HOH A 37 337 200 HOH HOH . K 3 HOH A 38 338 72 HOH HOH . K 3 HOH A 39 339 95 HOH HOH . K 3 HOH A 40 340 288 HOH HOH . K 3 HOH A 41 341 94 HOH HOH . K 3 HOH A 42 342 327 HOH HOH . K 3 HOH A 43 343 73 HOH HOH . K 3 HOH A 44 344 153 HOH HOH . K 3 HOH A 45 345 189 HOH HOH . K 3 HOH A 46 346 249 HOH HOH . K 3 HOH A 47 347 330 HOH HOH . K 3 HOH A 48 348 253 HOH HOH . K 3 HOH A 49 349 104 HOH HOH . K 3 HOH A 50 350 319 HOH HOH . K 3 HOH A 51 351 273 HOH HOH . K 3 HOH A 52 352 296 HOH HOH . K 3 HOH A 53 353 27 HOH HOH . K 3 HOH A 54 354 19 HOH HOH . L 3 HOH B 1 301 82 HOH HOH . L 3 HOH B 2 302 101 HOH HOH . L 3 HOH B 3 303 300 HOH HOH . L 3 HOH B 4 304 206 HOH HOH . L 3 HOH B 5 305 144 HOH HOH . L 3 HOH B 6 306 55 HOH HOH . L 3 HOH B 7 307 49 HOH HOH . L 3 HOH B 8 308 323 HOH HOH . L 3 HOH B 9 309 70 HOH HOH . L 3 HOH B 10 310 48 HOH HOH . L 3 HOH B 11 311 29 HOH HOH . L 3 HOH B 12 312 116 HOH HOH . L 3 HOH B 13 313 52 HOH HOH . L 3 HOH B 14 314 54 HOH HOH . L 3 HOH B 15 315 23 HOH HOH . L 3 HOH B 16 316 231 HOH HOH . L 3 HOH B 17 317 61 HOH HOH . L 3 HOH B 18 318 163 HOH HOH . L 3 HOH B 19 319 15 HOH HOH . L 3 HOH B 20 320 7 HOH HOH . L 3 HOH B 21 321 115 HOH HOH . L 3 HOH B 22 322 292 HOH HOH . L 3 HOH B 23 323 28 HOH HOH . L 3 HOH B 24 324 12 HOH HOH . L 3 HOH B 25 325 22 HOH HOH . L 3 HOH B 26 326 47 HOH HOH . L 3 HOH B 27 327 4 HOH HOH . L 3 HOH B 28 328 59 HOH HOH . L 3 HOH B 29 329 3 HOH HOH . L 3 HOH B 30 330 149 HOH HOH . L 3 HOH B 31 331 33 HOH HOH . L 3 HOH B 32 332 167 HOH HOH . L 3 HOH B 33 333 53 HOH HOH . L 3 HOH B 34 334 208 HOH HOH . L 3 HOH B 35 335 39 HOH HOH . L 3 HOH B 36 336 45 HOH HOH . L 3 HOH B 37 337 36 HOH HOH . L 3 HOH B 38 338 141 HOH HOH . L 3 HOH B 39 339 337 HOH HOH . L 3 HOH B 40 340 76 HOH HOH . L 3 HOH B 41 341 38 HOH HOH . L 3 HOH B 42 342 237 HOH HOH . L 3 HOH B 43 343 336 HOH HOH . L 3 HOH B 44 344 131 HOH HOH . L 3 HOH B 45 345 315 HOH HOH . L 3 HOH B 46 346 99 HOH HOH . L 3 HOH B 47 347 126 HOH HOH . L 3 HOH B 48 348 77 HOH HOH . L 3 HOH B 49 349 333 HOH HOH . L 3 HOH B 50 350 123 HOH HOH . L 3 HOH B 51 351 147 HOH HOH . L 3 HOH B 52 352 68 HOH HOH . L 3 HOH B 53 353 241 HOH HOH . L 3 HOH B 54 354 96 HOH HOH . L 3 HOH B 55 355 62 HOH HOH . L 3 HOH B 56 356 34 HOH HOH . L 3 HOH B 57 357 212 HOH HOH . L 3 HOH B 58 358 148 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 N N SFG . . . G 2 35.338 -2.064 -16.344 1 91.94 ? N SFG 201 A 1 HETATM 2 C CA SFG . . . G 2 34.159 -1.498 -15.674 1 91.34 ? CA SFG 201 A 1 HETATM 3 C C SFG . . . G 2 34.425 -1.331 -14.192 1 94.26 ? C SFG 201 A 1 HETATM 4 O O SFG . . . G 2 35.048 -2.175 -13.579 1 78.48 ? O SFG 201 A 1 HETATM 5 O OXT SFG . . . G 2 33.874 -0.294 -13.533 1 103.28 ? OXT SFG 201 A 1 HETATM 6 C CB SFG . . . G 2 32.96 -2.432 -15.874 1 82.55 ? CB SFG 201 A 1 HETATM 7 C CG SFG . . . G 2 33.072 -3.13 -17.232 1 72.54 ? CG SFG 201 A 1 HETATM 8 C CD SFG . . . G 2 31.998 -4.216 -17.359 1 61.39 ? CD SFG 201 A 1 HETATM 9 N NE SFG . . . G 2 32.131 -5.155 -16.229 1 63.55 ? NE SFG 201 A 1 HETATM 10 C C5' SFG . . . G 2 32.225 -4.963 -18.677 1 55.66 ? C5' SFG 201 A 1 HETATM 11 C C4' SFG . . . G 2 31.206 -4.528 -19.735 1 51.41 ? C4' SFG 201 A 1 HETATM 12 O O4' SFG . . . G 2 29.858 -4.642 -19.258 1 58.35 ? O4' SFG 201 A 1 HETATM 13 C C3' SFG . . . G 2 31.385 -3.039 -20.093 1 47.93 ? C3' SFG 201 A 1 HETATM 14 O O3' SFG . . . G 2 32.371 -2.879 -21.11 1 52.22 ? O3' SFG 201 A 1 HETATM 15 C C2' SFG . . . G 2 29.985 -2.688 -20.662 1 61.78 ? C2' SFG 201 A 1 HETATM 16 O O2' SFG . . . G 2 29.975 -2.913 -22.088 1 39.41 ? O2' SFG 201 A 1 HETATM 17 C C1' SFG . . . G 2 29.015 -3.65 -19.902 1 45.44 ? C1' SFG 201 A 1 HETATM 18 N N9 SFG . . . G 2 28.234 -2.948 -18.858 1 57.28 ? N9 SFG 201 A 1 HETATM 19 C C8 SFG . . . G 2 28.421 -3.101 -17.508 1 56.2 ? C8 SFG 201 A 1 HETATM 20 N N7 SFG . . . G 2 27.591 -2.354 -16.843 1 52.73 ? N7 SFG 201 A 1 HETATM 21 C C5 SFG . . . G 2 26.808 -1.668 -17.723 1 50.78 ? C5 SFG 201 A 1 HETATM 22 C C6 SFG . . . G 2 25.763 -0.739 -17.587 1 47.33 ? C6 SFG 201 A 1 HETATM 23 N N6 SFG . . . G 2 25.344 -0.358 -16.322 1 47.09 ? N6 SFG 201 A 1 HETATM 24 N N1 SFG . . . G 2 25.191 -0.243 -18.689 1 42.31 ? N1 SFG 201 A 1 HETATM 25 C C2 SFG . . . G 2 25.579 -0.621 -19.898 1 40.24 ? C2 SFG 201 A 1 HETATM 26 N N3 SFG . . . G 2 26.559 -1.49 -20.069 1 42.18 ? N3 SFG 201 A 1 HETATM 27 C C4 SFG . . . G 2 27.196 -2.04 -19.024 1 50.51 ? C4 SFG 201 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #