data_1PF7 # _model_server_result.job_id WuCToY_Lo-Sx0zY68Weayw _model_server_result.datetime_utc '2024-11-25 15:20:37' _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 1pf7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":290}' # _entry.id 1PF7 # _exptl.entry_id 1PF7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.253 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL _entity.pdbx_number_of_molecules 1 _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 1PF7 _cell.length_a 139.39 _cell.length_b 139.39 _cell.length_c 161.31 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PF7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 139.39 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 69.695 120.715281 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H14 N4 O4' _chem_comp.formula_weight 266.253 _chem_comp.id IMH _chem_comp.mon_nstd_flag . _chem_comp.name 1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN-9-YL)-D-RIBITOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Forodesine;Immucillin H' # 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 O5' C5' IMH sing 173 n n O5' "HO'5" IMH sing 174 n n C5' C4' IMH sing 175 n n C5' "H5'1" IMH sing 176 n n C5' "H5'2" IMH sing 177 n n C4' N4' IMH sing 178 n n C4' C3' IMH sing 179 n n C4' H4' IMH sing 180 n n N4' C1' IMH sing 181 n n N4' "HN'4" IMH sing 182 n n C3' O3' IMH sing 183 n n C3' C2' IMH sing 184 n n C3' H3' IMH sing 185 n n O3' "HO'3" IMH sing 186 n n C2' O2' IMH sing 187 n n C2' C1' IMH sing 188 n n C2' H2' IMH sing 189 n n O2' "HO'2" IMH sing 190 n n C1' C9 IMH sing 191 n n C1' H1' IMH sing 192 n n C9 C8 IMH doub 193 n y C9 C4 IMH sing 194 n y C8 N7 IMH sing 195 n y C8 H8 IMH sing 196 n n N7 C5 IMH sing 197 n y N7 HN7 IMH sing 198 n n C5 C6 IMH sing 199 n n C5 C4 IMH doub 200 n y C6 O6 IMH doub 201 n n C6 N1 IMH sing 202 n n N1 C2 IMH sing 203 n n C2 N3 IMH doub 204 n n C2 H2 IMH sing 205 n n N3 C4 IMH sing 206 n n N1 H1 IMH sing 207 n n # _atom_sites.entry_id 1PF7 _atom_sites.fract_transf_matrix[1][1] 0.007174 _atom_sites.fract_transf_matrix[1][2] 0.004142 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008284 _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] 0.006199 _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 B 2 SO4 E 1 291 291 SO4 SO4 . C 2 SO4 E 1 292 292 SO4 SO4 . D 2 SO4 E 1 293 293 SO4 SO4 . E 3 IMH E 1 290 290 IMH IMH . F 4 HOH E 1 294 294 HOH HOH . F 4 HOH E 2 295 295 HOH HOH . F 4 HOH E 3 296 296 HOH HOH . F 4 HOH E 4 297 297 HOH HOH . F 4 HOH E 5 298 298 HOH HOH . F 4 HOH E 6 299 299 HOH HOH . F 4 HOH E 7 300 300 HOH HOH . F 4 HOH E 8 301 301 HOH HOH . F 4 HOH E 9 302 302 HOH HOH . F 4 HOH E 10 303 303 HOH HOH . F 4 HOH E 11 304 304 HOH HOH . F 4 HOH E 12 305 305 HOH HOH . F 4 HOH E 13 306 306 HOH HOH . F 4 HOH E 14 307 307 HOH HOH . F 4 HOH E 15 308 308 HOH HOH . F 4 HOH E 16 309 309 HOH HOH . F 4 HOH E 17 310 310 HOH HOH . F 4 HOH E 18 311 311 HOH HOH . F 4 HOH E 19 312 312 HOH HOH . F 4 HOH E 20 313 313 HOH HOH . F 4 HOH E 21 314 314 HOH HOH . F 4 HOH E 22 315 315 HOH HOH . F 4 HOH E 23 316 316 HOH HOH . F 4 HOH E 24 317 317 HOH HOH . F 4 HOH E 25 318 318 HOH HOH . F 4 HOH E 26 319 319 HOH HOH . F 4 HOH E 27 320 320 HOH HOH . F 4 HOH E 28 321 321 HOH HOH . F 4 HOH E 29 322 322 HOH HOH . F 4 HOH E 30 323 323 HOH HOH . F 4 HOH E 31 324 324 HOH HOH . F 4 HOH E 32 325 325 HOH HOH . F 4 HOH E 33 326 326 HOH HOH . F 4 HOH E 34 327 327 HOH HOH . F 4 HOH E 35 328 328 HOH HOH . F 4 HOH E 36 329 329 HOH HOH . F 4 HOH E 37 330 330 HOH HOH . F 4 HOH E 38 331 331 HOH HOH . F 4 HOH E 39 332 332 HOH HOH . F 4 HOH E 40 333 333 HOH HOH . F 4 HOH E 41 334 334 HOH HOH . F 4 HOH E 42 335 335 HOH HOH . F 4 HOH E 43 336 336 HOH HOH . F 4 HOH E 44 337 337 HOH HOH . F 4 HOH E 45 338 338 HOH HOH . F 4 HOH E 46 339 339 HOH HOH . F 4 HOH E 47 340 340 HOH HOH . F 4 HOH E 48 341 341 HOH HOH . F 4 HOH E 49 342 342 HOH HOH . F 4 HOH E 50 343 343 HOH HOH . F 4 HOH E 51 344 344 HOH HOH . F 4 HOH E 52 345 345 HOH HOH . F 4 HOH E 53 346 346 HOH HOH . F 4 HOH E 54 347 347 HOH HOH . F 4 HOH E 55 348 348 HOH HOH . F 4 HOH E 56 349 349 HOH HOH . F 4 HOH E 57 350 350 HOH HOH . F 4 HOH E 58 351 351 HOH HOH . F 4 HOH E 59 352 352 HOH HOH . F 4 HOH E 60 353 353 HOH HOH . F 4 HOH E 61 354 354 HOH HOH . F 4 HOH E 62 355 355 HOH HOH . F 4 HOH E 63 356 356 HOH HOH . F 4 HOH E 64 357 357 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 O5' IMH . . . E 3 50.725 49.178 30.27 1 45.59 ? O5' IMH 290 E 1 HETATM 2 C C5' IMH . . . E 3 49.961 48.469 31.277 1 37.77 ? C5' IMH 290 E 1 HETATM 3 C C4' IMH . . . E 3 50.462 47.028 31.579 1 38.04 ? C4' IMH 290 E 1 HETATM 4 N N4' IMH . . . E 3 50.533 46.458 30.209 1 37.28 ? N4' IMH 290 E 1 HETATM 5 C C3' IMH . . . E 3 51.905 46.866 32.168 1 34.08 ? C3' IMH 290 E 1 HETATM 6 O O3' IMH . . . E 3 51.949 46.05 33.403 1 30.3 ? O3' IMH 290 E 1 HETATM 7 C C2' IMH . . . E 3 52.802 46.221 31.006 1 34.18 ? C2' IMH 290 E 1 HETATM 8 O O2' IMH . . . E 3 53.417 44.933 31.372 1 33.67 ? O2' IMH 290 E 1 HETATM 9 C C1' IMH . . . E 3 51.877 46.003 29.805 1 34.34 ? C1' IMH 290 E 1 HETATM 10 C C9 IMH . . . E 3 52.299 46.814 28.438 1 31.75 ? C9 IMH 290 E 1 HETATM 11 C C8 IMH . . . E 3 51.423 47.442 27.603 1 30.71 ? C8 IMH 290 E 1 HETATM 12 N N7 IMH . . . E 3 52.145 48.055 26.5 1 37.05 ? N7 IMH 290 E 1 HETATM 13 C C5 IMH . . . E 3 53.514 47.729 26.766 1 33.03 ? C5 IMH 290 E 1 HETATM 14 C C6 IMH . . . E 3 54.695 48.115 25.944 1 30.84 ? C6 IMH 290 E 1 HETATM 15 O O6 IMH . . . E 3 54.718 48.786 24.886 1 39.08 ? O6 IMH 290 E 1 HETATM 16 N N1 IMH . . . E 3 55.876 47.605 26.54 1 30.09 ? N1 IMH 290 E 1 HETATM 17 C C2 IMH . . . E 3 55.96 46.845 27.729 1 30.3 ? C2 IMH 290 E 1 HETATM 18 N N3 IMH . . . E 3 54.843 46.542 28.409 1 36.91 ? N3 IMH 290 E 1 HETATM 19 C C4 IMH . . . E 3 53.647 46.997 27.903 1 32.71 ? C4 IMH 290 E 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 19 #