data_2ON6 # _model_server_result.job_id qG9xUWGNXHP3jDaXXkOyoQ _model_server_result.datetime_utc '2024-11-29 01:26:18' _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 2on6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 2ON6 # _exptl.entry_id 2ON6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.253 _entity.id 2 _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 2ON6 _cell.length_a 142.856 _cell.length_b 142.856 _cell.length_c 167.995 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ON6 _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 _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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 2ON6 _atom_sites.fract_transf_matrix[1][1] 0.007 _atom_sites.fract_transf_matrix[1][2] 0.004041 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008083 _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] 0.005953 _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 IMH A 1 300 300 IMH IMH . C 3 HOH A 1 301 2 HOH HOH . C 3 HOH A 2 302 3 HOH HOH . C 3 HOH A 3 303 4 HOH HOH . C 3 HOH A 4 304 5 HOH HOH . C 3 HOH A 5 305 6 HOH HOH . C 3 HOH A 6 306 7 HOH HOH . C 3 HOH A 7 307 8 HOH HOH . C 3 HOH A 8 308 9 HOH HOH . C 3 HOH A 9 309 10 HOH HOH . C 3 HOH A 10 310 11 HOH HOH . C 3 HOH A 11 311 12 HOH HOH . C 3 HOH A 12 312 13 HOH HOH . C 3 HOH A 13 313 14 HOH HOH . C 3 HOH A 14 314 15 HOH HOH . C 3 HOH A 15 315 16 HOH HOH . C 3 HOH A 16 316 17 HOH HOH . C 3 HOH A 17 317 18 HOH HOH . C 3 HOH A 18 318 19 HOH HOH . C 3 HOH A 19 319 20 HOH HOH . C 3 HOH A 20 320 21 HOH HOH . C 3 HOH A 21 321 22 HOH HOH . C 3 HOH A 22 322 23 HOH HOH . C 3 HOH A 23 323 24 HOH HOH . C 3 HOH A 24 324 25 HOH HOH . C 3 HOH A 25 325 26 HOH HOH . C 3 HOH A 26 326 27 HOH HOH . C 3 HOH A 27 327 28 HOH HOH . C 3 HOH A 28 328 29 HOH HOH . C 3 HOH A 29 329 30 HOH HOH . C 3 HOH A 30 330 31 HOH HOH . C 3 HOH A 31 331 32 HOH HOH . C 3 HOH A 32 332 33 HOH HOH . C 3 HOH A 33 333 34 HOH HOH . C 3 HOH A 34 334 35 HOH HOH . C 3 HOH A 35 335 36 HOH HOH . C 3 HOH A 36 336 37 HOH HOH . C 3 HOH A 37 337 38 HOH HOH . C 3 HOH A 38 338 39 HOH HOH . C 3 HOH A 39 339 5001 HOH HOH . C 3 HOH A 40 340 5002 HOH HOH . C 3 HOH A 41 341 5003 HOH HOH . C 3 HOH A 42 342 5004 HOH HOH . C 3 HOH A 43 343 5006 HOH HOH . C 3 HOH A 44 344 5007 HOH HOH . C 3 HOH A 45 345 5009 HOH HOH . C 3 HOH A 46 346 5010 HOH HOH . C 3 HOH A 47 347 5012 HOH HOH . C 3 HOH A 48 348 5013 HOH HOH . C 3 HOH A 49 349 5015 HOH HOH . C 3 HOH A 50 350 5017 HOH HOH . C 3 HOH A 51 351 5018 HOH HOH . C 3 HOH A 52 352 5019 HOH HOH . C 3 HOH A 53 353 5020 HOH HOH . C 3 HOH A 54 354 5021 HOH HOH . C 3 HOH A 55 355 5023 HOH HOH . C 3 HOH A 56 356 5024 HOH HOH . C 3 HOH A 57 357 5025 HOH HOH . C 3 HOH A 58 358 5027 HOH HOH . C 3 HOH A 59 359 5028 HOH HOH . C 3 HOH A 60 360 5029 HOH HOH . C 3 HOH A 61 361 5031 HOH HOH . C 3 HOH A 62 362 5033 HOH HOH . C 3 HOH A 63 363 5034 HOH HOH . C 3 HOH A 64 364 5037 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 . . . B 2 11.899 15.799 61.614 0.5 55.73 ? O5' IMH 300 A 1 HETATM 2 C C5' IMH . . . B 2 11.029 14.985 60.825 0.5 56.77 ? C5' IMH 300 A 1 HETATM 3 C C4' IMH . . . B 2 11.577 13.581 60.717 0.5 60.09 ? C4' IMH 300 A 1 HETATM 4 N N4' IMH . . . B 2 11.704 13.13 59.321 0.5 60.72 ? N4' IMH 300 A 1 HETATM 5 C C3' IMH . . . B 2 12.996 13.538 61.297 0.5 62.47 ? C3' IMH 300 A 1 HETATM 6 O O3' IMH . . . B 2 13.053 13.091 62.67 0.5 62.19 ? O3' IMH 300 A 1 HETATM 7 C C2' IMH . . . B 2 13.832 12.719 60.276 0.5 63.96 ? C2' IMH 300 A 1 HETATM 8 O O2' IMH . . . B 2 14.722 11.724 60.856 0.5 64.24 ? O2' IMH 300 A 1 HETATM 9 C C1' IMH . . . B 2 12.84 12.209 59.182 0.5 60.54 ? C1' IMH 300 A 1 HETATM 10 C C9 IMH . . . B 2 13.546 11.892 57.874 0.5 58.99 ? C9 IMH 300 A 1 HETATM 11 C C8 IMH . . . B 2 14.514 12.651 57.2 0.5 58.39 ? C8 IMH 300 A 1 HETATM 12 N N7 IMH . . . B 2 14.95 11.932 56.093 0.5 57.98 ? N7 IMH 300 A 1 HETATM 13 C C5 IMH . . . B 2 14.345 10.715 56.018 0.5 58.07 ? C5 IMH 300 A 1 HETATM 14 C C6 IMH . . . B 2 14.354 9.52 55.143 0.5 58.06 ? C6 IMH 300 A 1 HETATM 15 O O6 IMH . . . B 2 15.147 9.441 54.048 0.5 58.69 ? O6 IMH 300 A 1 HETATM 16 N N1 IMH . . . B 2 13.534 8.475 55.452 0.5 59.19 ? N1 IMH 300 A 1 HETATM 17 C C2 IMH . . . B 2 12.709 8.463 56.524 0.5 58.06 ? C2 IMH 300 A 1 HETATM 18 N N3 IMH . . . B 2 12.634 9.504 57.365 0.5 58.07 ? N3 IMH 300 A 1 HETATM 19 C C4 IMH . . . B 2 13.417 10.597 57.161 0.5 58.75 ? C4 IMH 300 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 371 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #