data_2QT0 # _model_server_result.job_id UnqRKLqgDg2qtxqA3L9baw _model_server_result.datetime_utc '2024-10-30 14:17:53' _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 2qt0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1103}' # _entry.id 2QT0 # _exptl.entry_id 2QT0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 255.247 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Nicotinamide riboside' _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 90 _cell.entry_id 2QT0 _cell.length_a 97.025 _cell.length_b 97.025 _cell.length_c 44.801 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2QT0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 A C ASN 80 A ASN 62 1_555 A N MSE 81 A MSE 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C MSE 81 A MSE 63 1_555 A N GLU 82 A GLU 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale3 A C LYS 83 A LYS 65 1_555 A N MSE 84 A MSE 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale4 A C MSE 84 A MSE 66 1_555 A N MSE 85 A MSE 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 A C MSE 85 A MSE 67 1_555 A N SER 86 A SER 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 A C TRP 91 A TRP 73 1_555 A N MSE 92 A MSE 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 A C MSE 92 A MSE 74 1_555 A N GLU 93 A GLU 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? covale ? covale8 A C PRO 167 A PRO 149 1_555 A N MSE 168 A MSE 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 A C MSE 168 A MSE 150 1_555 A N TYR 169 A TYR 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale10 A C GLU 175 A GLU 157 1_555 A N MSE 176 A MSE 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale11 A C MSE 176 A MSE 158 1_555 A N GLN 177 A GLN 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? metalc ? metalc1 A OG1 THR 35 A THR 17 1_555 B MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc2 A OD2 ASP 54 A ASP 36 1_555 B MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc3 E O HOH . A HOH 231 1_555 B MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc4 E O HOH . A HOH 232 1_555 B MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc5 B MG MG . A MG 1001 1_555 C O1G ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc6 B MG MG . A MG 1001 1_555 C O2B ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? # _chem_comp.formula 'C11 H15 N2 O5 1' _chem_comp.formula_weight 255.247 _chem_comp.id NNR _chem_comp.mon_nstd_flag . _chem_comp.name 'Nicotinamide riboside' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 3-(aminocarbonyl)-1-beta-D-ribofuranosylpyridinium # 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 C5 C6 NNR doub 287 n y C5 C4 NNR sing 288 n y C6 N1 NNR sing 289 n y C4 C3 NNR doub 290 n y O2R C2R NNR sing 291 n n N1 C1R NNR sing 292 n n N1 C2 NNR doub 293 n y C3 C2 NNR sing 294 n y C3 C7 NNR sing 295 n n C1R C2R NNR sing 296 n n C1R O4R NNR sing 297 n n C2R C3R NNR sing 298 n n C7 O7 NNR doub 299 n n C7 N7 NNR sing 300 n n O3R C3R NNR sing 301 n n O4R C4R NNR sing 302 n n C3R C4R NNR sing 303 n n C4R C5R NNR sing 304 n n C5R O5R NNR sing 305 n n O2R HO2R NNR sing 306 n n C2R H2R NNR sing 307 n n C3R H3R NNR sing 308 n n O3R HO3R NNR sing 309 n n C4R H4R NNR sing 310 n n C5R H5R1 NNR sing 311 n n C5R H5R2 NNR sing 312 n n O5R HO5R NNR sing 313 n n C1R H1R NNR sing 314 n n C2 H2 NNR sing 315 n n C6 H6 NNR sing 316 n n C5 H5 NNR sing 317 n n C4 H4 NNR sing 318 n n N7 HN71 NNR sing 319 n n N7 HN72 NNR sing 320 n n # _atom_sites.entry_id 2QT0 _atom_sites.fract_transf_matrix[1][1] 0.01031 _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] 0.01031 _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] 0.02232 _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 MG A 1 1001 1001 MG MG . C 3 ANP A 1 1102 1102 ANP ANP . D 4 NNR A 1 1103 1103 NNR NNR . E 5 HOH A 1 201 201 HOH HOH . E 5 HOH A 2 202 202 HOH HOH . E 5 HOH A 3 203 203 HOH HOH . E 5 HOH A 4 204 204 HOH HOH . E 5 HOH A 5 205 205 HOH HOH . E 5 HOH A 6 206 206 HOH HOH . E 5 HOH A 7 207 207 HOH HOH . E 5 HOH A 8 208 208 HOH HOH . E 5 HOH A 9 209 209 HOH HOH . E 5 HOH A 10 210 210 HOH HOH . E 5 HOH A 11 211 211 HOH HOH . E 5 HOH A 12 212 212 HOH HOH . E 5 HOH A 13 213 213 HOH HOH . E 5 HOH A 14 214 214 HOH HOH . E 5 HOH A 15 215 215 HOH HOH . E 5 HOH A 16 216 216 HOH HOH . E 5 HOH A 17 217 217 HOH HOH . E 5 HOH A 18 218 218 HOH HOH . E 5 HOH A 19 219 219 HOH HOH . E 5 HOH A 20 220 220 HOH HOH . E 5 HOH A 21 221 221 HOH HOH . E 5 HOH A 22 222 222 HOH HOH . E 5 HOH A 23 223 223 HOH HOH . E 5 HOH A 24 224 224 HOH HOH . E 5 HOH A 25 225 225 HOH HOH . E 5 HOH A 26 226 226 HOH HOH . E 5 HOH A 27 227 227 HOH HOH . E 5 HOH A 28 228 228 HOH HOH . E 5 HOH A 29 229 229 HOH HOH . E 5 HOH A 30 230 230 HOH HOH . E 5 HOH A 31 231 231 HOH HOH . E 5 HOH A 32 232 232 HOH HOH . E 5 HOH A 33 233 233 HOH HOH . E 5 HOH A 34 234 234 HOH HOH . E 5 HOH A 35 235 235 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 O2R NNR . . . D 4 -19.388 -2.347 -12.021 1 31.66 ? O2R NNR 1103 A 1 HETATM 2 C C2R NNR . . . D 4 -19.216 -1.443 -10.866 1 31.88 ? C2R NNR 1103 A 1 HETATM 3 C C3R NNR . . . D 4 -20.371 -1.512 -9.856 1 30.35 ? C3R NNR 1103 A 1 HETATM 4 O O3R NNR . . . D 4 -21.502 -2.18 -10.408 1 31.63 ? O3R NNR 1103 A 1 HETATM 5 C C4R NNR . . . D 4 -20.724 -0.022 -9.57 1 31.53 ? C4R NNR 1103 A 1 HETATM 6 C C5R NNR . . . D 4 -20.949 0.255 -8.039 1 32.48 ? C5R NNR 1103 A 1 HETATM 7 O O5R NNR . . . D 4 -20.346 1.485 -7.702 1 35.44 ? O5R NNR 1103 A 1 HETATM 8 O O4R NNR . . . D 4 -19.599 0.759 -10.073 1 30.6 ? O4R NNR 1103 A 1 HETATM 9 C C1R NNR . . . D 4 -19.254 0.031 -11.295 1 35.12 ? C1R NNR 1103 A 1 HETATM 10 N N1 NNR . . . D 4 -17.881 0.407 -11.761 1 34.76 ? N1 NNR 1103 A 1 HETATM 11 C C2 NNR . . . D 4 -17.073 1.25 -10.976 1 34.55 ? C2 NNR 1103 A 1 HETATM 12 C C6 NNR . . . D 4 -17.371 -0.115 -12.973 1 34.9 ? C6 NNR 1103 A 1 HETATM 13 C C5 NNR . . . D 4 -16.09 0.245 -13.386 1 32.42 ? C5 NNR 1103 A 1 HETATM 14 C C4 NNR . . . D 4 -15.315 1.091 -12.609 1 35.2 ? C4 NNR 1103 A 1 HETATM 15 C C3 NNR . . . D 4 -15.801 1.597 -11.407 1 33.86 ? C3 NNR 1103 A 1 HETATM 16 C C7 NNR . . . D 4 -14.925 2.527 -10.55 1 35.38 ? C7 NNR 1103 A 1 HETATM 17 O O7 NNR . . . D 4 -13.717 2.384 -10.539 1 37.84 ? O7 NNR 1103 A 1 HETATM 18 N N7 NNR . . . D 4 -15.564 3.438 -9.828 1 34.72 ? N7 NNR 1103 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 18 #