data_6OB6 # _model_server_result.job_id sQfulbV5AhduD0oq8NCTwg _model_server_result.datetime_utc '2024-11-04 17:56:30' _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 6ob6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 6OB6 # _exptl.entry_id 6OB6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 419.412 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-{[(4-nitrophenyl)methyl]sulfanyl}-9-beta-D-ribofuranosyl-9H-purine _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 6OB6 _cell.length_a 72.532 _cell.length_b 72.532 _cell.length_c 335.458 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6OB6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C 1 1 B,D 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 C N N ? 2 D N N # _chem_comp.formula 'C17 H17 N5 O6 S' _chem_comp.formula_weight 419.412 _chem_comp.id NBM _chem_comp.mon_nstd_flag . _chem_comp.name 6-{[(4-nitrophenyl)methyl]sulfanyl}-9-beta-D-ribofuranosyl-9H-purine _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 C23 O24 NBM sing 235 n n C23 C21 NBM sing 236 n n C16 N15 NBM doub 237 n y C16 N17 NBM sing 238 n y N15 C14 NBM sing 239 n y O22 C21 NBM sing 240 n n O22 C18 NBM sing 241 n n C20 C21 NBM sing 242 n n C20 C19 NBM sing 243 n n C20 O25 NBM sing 244 n n N17 C18 NBM sing 245 n n N17 C13 NBM sing 246 n y S08 C09 NBM sing 247 n n S08 C07 NBM sing 248 n n C19 C18 NBM sing 249 n n C19 O26 NBM sing 250 n n C14 C13 NBM doub 251 n y C14 C09 NBM sing 252 n y C01 C02 NBM doub 253 n y C01 C06 NBM sing 254 n y C02 C03 NBM sing 255 n y O29 N27 NBM sing 256 n n C13 N12 NBM sing 257 n y C09 N10 NBM doub 258 n y C07 C06 NBM sing 259 n n C06 C05 NBM doub 260 n y C03 N27 NBM sing 261 n n C03 C04 NBM doub 262 n y N27 O28 NBM doub 263 n n N10 C11 NBM sing 264 n y N12 C11 NBM doub 265 n y C05 C04 NBM sing 266 n y C01 H011 NBM sing 267 n n C02 H021 NBM sing 268 n n C04 H041 NBM sing 269 n n C05 H051 NBM sing 270 n n C07 H071 NBM sing 271 n n C07 H072 NBM sing 272 n n C11 H111 NBM sing 273 n n C16 H161 NBM sing 274 n n C18 H181 NBM sing 275 n n C19 H191 NBM sing 276 n n C20 H201 NBM sing 277 n n C21 H211 NBM sing 278 n n C23 H231 NBM sing 279 n n C23 H232 NBM sing 280 n n O24 H241 NBM sing 281 n n O25 H251 NBM sing 282 n n O26 H261 NBM sing 283 n n # _atom_sites.entry_id 6OB6 _atom_sites.fract_transf_matrix[1][1] 0.013787 _atom_sites.fract_transf_matrix[1][2] 0.00796 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01592 _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] 0.002981 _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 NBM A 1 501 501 NBM NBM . D 2 NBM B 1 501 501 NBM NBM . # 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 C01 NBM . . . C 2 11.117 30.053 31.598 1 24.94 ? C01 NBM 501 A 1 HETATM 2 C C02 NBM . . . C 2 12.243 29.274 31.678 1 16.97 ? C02 NBM 501 A 1 HETATM 3 C C03 NBM . . . C 2 12.977 29.218 32.876 1 26.96 ? C03 NBM 501 A 1 HETATM 4 C C04 NBM . . . C 2 12.551 29.962 34 1 18.88 ? C04 NBM 501 A 1 HETATM 5 C C05 NBM . . . C 2 11.403 30.757 33.919 1 26.95 ? C05 NBM 501 A 1 HETATM 6 C C06 NBM . . . C 2 10.686 30.814 32.744 1 15.62 ? C06 NBM 501 A 1 HETATM 7 C C07 NBM . . . C 2 9.394 31.706 32.659 1 17.54 ? C07 NBM 501 A 1 HETATM 8 C C09 NBM . . . C 2 9.842 34.599 32.264 1 6.57 ? C09 NBM 501 A 1 HETATM 9 C C11 NBM . . . C 2 10.074 35.804 34.275 1 25.75 ? C11 NBM 501 A 1 HETATM 10 C C13 NBM . . . C 2 10.209 36.999 32.245 1 21.01 ? C13 NBM 501 A 1 HETATM 11 C C14 NBM . . . C 2 10.012 35.822 31.519 1 16.86 ? C14 NBM 501 A 1 HETATM 12 C C16 NBM . . . C 2 10.236 37.517 30.087 1 17.02 ? C16 NBM 501 A 1 HETATM 13 C C18 NBM . . . C 2 10.565 39.399 31.748 1 33.17 ? C18 NBM 501 A 1 HETATM 14 C C19 NBM . . . C 2 11.759 39.839 31.338 1 25.26 ? C19 NBM 501 A 1 HETATM 15 C C20 NBM . . . C 2 11.559 41.278 31.017 1 19.82 ? C20 NBM 501 A 1 HETATM 16 C C21 NBM . . . C 2 9.994 41.509 31.086 1 21.54 ? C21 NBM 501 A 1 HETATM 17 C C23 NBM . . . C 2 9.491 42.342 29.865 1 21.63 ? C23 NBM 501 A 1 HETATM 18 N N10 NBM . . . C 2 9.88 34.629 33.604 1 19.61 ? N10 NBM 501 A 1 HETATM 19 N N12 NBM . . . C 2 10.233 36.945 33.619 1 19.45 ? N12 NBM 501 A 1 HETATM 20 N N15 NBM . . . C 2 10.035 36.178 30.175 1 21.28 ? N15 NBM 501 A 1 HETATM 21 N N17 NBM . . . C 2 10.348 38.025 31.365 1 19.6 ? N17 NBM 501 A 1 HETATM 22 N N27 NBM . . . C 2 14.184 28.377 32.949 1 52.3 ? N27 NBM 501 A 1 HETATM 23 O O22 NBM . . . C 2 9.481 40.348 31.043 1 36.63 ? O22 NBM 501 A 1 HETATM 24 O O24 NBM . . . C 2 8.093 42.375 29.914 1 36.32 ? O24 NBM 501 A 1 HETATM 25 O O25 NBM . . . C 2 12.206 42.06 31.944 1 17.9 ? O25 NBM 501 A 1 HETATM 26 O O26 NBM . . . C 2 12.762 39.714 32.418 1 31.65 ? O26 NBM 501 A 1 HETATM 27 O O28 NBM . . . C 2 14.84 28.316 33.998 1 38.53 ? O28 NBM 501 A 1 HETATM 28 O O29 NBM . . . C 2 14.544 27.728 31.956 1 30.84 ? O29 NBM 501 A 1 HETATM 29 S S08 NBM . . . C 2 9.581 32.994 31.402 1 16.78 ? S08 NBM 501 A 1 HETATM 30 H H011 NBM . . . C 2 10.632 30.089 30.806 1 29.93 ? H011 NBM 501 A 1 HETATM 31 H H021 NBM . . . C 2 12.52 28.782 30.939 1 20.36 ? H021 NBM 501 A 1 HETATM 32 H H041 NBM . . . C 2 13.034 29.923 34.794 1 22.66 ? H041 NBM 501 A 1 HETATM 33 H H051 NBM . . . C 2 11.123 31.247 34.658 1 32.34 ? H051 NBM 501 A 1 HETATM 34 H H071 NBM . . . C 2 8.635 31.148 32.43 1 21.04 ? H071 NBM 501 A 1 HETATM 35 H H072 NBM . . . C 2 9.238 32.124 33.52 1 21.04 ? H072 NBM 501 A 1 HETATM 36 H H111 NBM . . . C 2 10.095 35.803 35.204 1 30.9 ? H111 NBM 501 A 1 HETATM 37 H H161 NBM . . . C 2 10.289 38.008 29.299 1 20.43 ? H161 NBM 501 A 1 HETATM 38 H H181 NBM . . . C 2 10.516 39.482 32.713 1 39.8 ? H181 NBM 501 A 1 HETATM 39 H H191 NBM . . . C 2 12.041 39.344 30.553 1 30.31 ? H191 NBM 501 A 1 HETATM 40 H H201 NBM . . . C 2 11.883 41.478 30.125 1 23.78 ? H201 NBM 501 A 1 HETATM 41 H H211 NBM . . . C 2 9.776 41.959 31.916 1 25.84 ? H211 NBM 501 A 1 HETATM 42 H H231 NBM . . . C 2 9.844 43.245 29.917 1 25.96 ? H231 NBM 501 A 1 HETATM 43 H H232 NBM . . . C 2 9.783 41.924 29.04 1 25.96 ? H232 NBM 501 A 1 HETATM 44 H H241 NBM . . . C 2 7.835 42.244 30.713 1 43.58 ? H241 NBM 501 A 1 HETATM 45 H H251 NBM . . . C 2 12.79 41.592 32.349 1 21.48 ? H251 NBM 501 A 1 HETATM 46 H H261 NBM . . . C 2 12.469 39.184 33.014 1 37.98 ? H261 NBM 501 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 46 #