data_7UMY # _model_server_result.job_id fFyWL1do06UCPURbInrcdw _model_server_result.datetime_utc '2024-10-30 11:27:30' _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 7umy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 7UMY # _exptl.entry_id 7UMY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.297 _cell.angle_gamma 90 _cell.entry_id 7UMY _cell.length_a 256.215 _cell.length_b 79.137 _cell.length_c 89.425 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UMY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 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 ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 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,E,F,G,H,K,L,O,P,Q,R,S,U,W,X 1 1 B,I,J,T 2 1,3 D,M,N,V 2 2,4 # 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' 1_556 x,y,z+1 1 0 0 0 1 0 0 0 1 -31.020329 0 83.872342 3 'crystal symmetry operation' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -31.020329 0 83.872342 4 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 J N N ? 2 L N N ? 2 M N N ? 2 P N N ? 2 R N 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 N ILE 26 A ILE 22 1_555 G O2N NAD . A NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? covale ? covale2 A NZ LYS 170 A LYS 166 1_555 G O2D NAD . A NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale3 C N ILE 26 C ILE 22 1_555 L O2N NAD . C NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.302 ? covale ? covale4 C NZ LYS 170 C LYS 166 1_555 L O2D NAD . C NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale5 D N ILE 26 D ILE 22 1_555 M O2N NAD . D NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.301 ? covale ? covale6 F N ILE 26 F ILE 22 1_555 R O2N NAD . F NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.301 ? # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 PA O1A NAD doub 237 n n PA O2A NAD sing 238 n n PA O5B NAD sing 239 n n PA O3 NAD sing 240 n n O2A HOA2 NAD sing 241 n n O5B C5B NAD sing 242 n n C5B C4B NAD sing 243 n n C5B H51A NAD sing 244 n n C5B H52A NAD sing 245 n n C4B O4B NAD sing 246 n n C4B C3B NAD sing 247 n n C4B H4B NAD sing 248 n n O4B C1B NAD sing 249 n n C3B O3B NAD sing 250 n n C3B C2B NAD sing 251 n n C3B H3B NAD sing 252 n n O3B HO3A NAD sing 253 n n C2B O2B NAD sing 254 n n C2B C1B NAD sing 255 n n C2B H2B NAD sing 256 n n O2B HO2A NAD sing 257 n n C1B N9A NAD sing 258 n n C1B H1B NAD sing 259 n n N9A C8A NAD sing 260 n y N9A C4A NAD sing 261 n y C8A N7A NAD doub 262 n y C8A H8A NAD sing 263 n n N7A C5A NAD sing 264 n y C5A C6A NAD sing 265 n y C5A C4A NAD doub 266 n y C6A N6A NAD sing 267 n n C6A N1A NAD doub 268 n y N6A H61A NAD sing 269 n n N6A H62A NAD sing 270 n n N1A C2A NAD sing 271 n y C2A N3A NAD doub 272 n y C2A H2A NAD sing 273 n n N3A C4A NAD sing 274 n y O3 PN NAD sing 275 n n PN O1N NAD doub 276 n n PN O2N NAD sing 277 n n PN O5D NAD sing 278 n n O5D C5D NAD sing 279 n n C5D C4D NAD sing 280 n n C5D H51N NAD sing 281 n n C5D H52N NAD sing 282 n n C4D O4D NAD sing 283 n n C4D C3D NAD sing 284 n n C4D H4D NAD sing 285 n n O4D C1D NAD sing 286 n n C3D O3D NAD sing 287 n n C3D C2D NAD sing 288 n n C3D H3D NAD sing 289 n n O3D HO3N NAD sing 290 n n C2D O2D NAD sing 291 n n C2D C1D NAD sing 292 n n C2D H2D NAD sing 293 n n O2D HO2N NAD sing 294 n n C1D N1N NAD sing 295 n n C1D H1D NAD sing 296 n n N1N C2N NAD sing 297 n y N1N C6N NAD doub 298 n y C2N C3N NAD doub 299 n y C2N H2N NAD sing 300 n n C3N C7N NAD sing 301 n n C3N C4N NAD sing 302 n y C7N O7N NAD doub 303 n n C7N N7N NAD sing 304 n n N7N H71N NAD sing 305 n n N7N H72N NAD sing 306 n n C4N C5N NAD doub 307 n y C4N H4N NAD sing 308 n n C5N C6N NAD sing 309 n y C5N H5N NAD sing 310 n n C6N H6N NAD sing 311 n n # _atom_sites.entry_id 7UMY _atom_sites.fract_transf_matrix[1][1] 0.003903 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001444 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012636 _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] 0.011923 _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 G 2 NAD A 1 301 301 NAD NAD . H 3 NUC A 1 302 302 NUC BRD . I 3 NUC B 1 301 301 NUC BRD . J 2 NAD B 1 302 302 NAD NAD . K 3 NUC C 1 301 301 NUC BRD . L 2 NAD C 1 302 302 NAD NAD . M 2 NAD D 1 301 301 NAD NAD . N 3 NUC D 1 302 302 NUC BRD . O 3 NUC E 1 301 301 NUC BRD . P 2 NAD E 1 302 302 NAD NAD . Q 3 NUC F 1 301 301 NUC BRD . R 2 NAD F 1 302 302 NAD NAD . S 4 HOH A 1 401 5 HOH HOH . S 4 HOH A 2 402 14 HOH HOH . S 4 HOH A 3 403 21 HOH HOH . S 4 HOH A 4 404 11 HOH HOH . T 4 HOH B 1 401 27 HOH HOH . T 4 HOH B 2 402 7 HOH HOH . U 4 HOH C 1 401 13 HOH HOH . U 4 HOH C 2 402 18 HOH HOH . U 4 HOH C 3 403 9 HOH HOH . U 4 HOH C 4 404 36 HOH HOH . U 4 HOH C 5 405 12 HOH HOH . U 4 HOH C 6 406 32 HOH HOH . U 4 HOH C 7 407 24 HOH HOH . U 4 HOH C 8 408 15 HOH HOH . U 4 HOH C 9 409 22 HOH HOH . V 4 HOH D 1 401 17 HOH HOH . W 4 HOH E 1 401 33 HOH HOH . W 4 HOH E 2 402 31 HOH HOH . X 4 HOH F 1 401 26 HOH HOH . X 4 HOH F 2 402 4 HOH HOH . X 4 HOH F 3 403 16 HOH HOH . X 4 HOH F 4 404 1 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 P PA NAD . . . G 2 13.074 -33.534 20.587 1 110.74 ? PA NAD 301 A 1 HETATM 2 O O1A NAD . . . G 2 11.692 -33.265 21.15 1 103.13 ? O1A NAD 301 A 1 HETATM 3 O O2A NAD . . . G 2 13.033 -34.731 19.691 1 119.92 ? O2A NAD 301 A 1 HETATM 4 O O5B NAD . . . G 2 13.571 -32.214 19.714 1 111.97 ? O5B NAD 301 A 1 HETATM 5 C C5B NAD . . . G 2 12.777 -31.836 18.625 1 104.79 ? C5B NAD 301 A 1 HETATM 6 C C4B NAD . . . G 2 11.722 -30.776 19.141 1 104.32 ? C4B NAD 301 A 1 HETATM 7 O O4B NAD . . . G 2 11.462 -29.693 18.039 1 104.31 ? O4B NAD 301 A 1 HETATM 8 C C3B NAD . . . G 2 10.604 -31.324 19.363 1 101.39 ? C3B NAD 301 A 1 HETATM 9 O O3B NAD . . . G 2 10.367 -31.375 20.807 1 103.08 ? O3B NAD 301 A 1 HETATM 10 C C2B NAD . . . G 2 9.413 -30.405 18.634 1 101.76 ? C2B NAD 301 A 1 HETATM 11 O O2B NAD . . . G 2 8.387 -30.079 19.598 1 102.01 ? O2B NAD 301 A 1 HETATM 12 C C1B NAD . . . G 2 9.968 -29.337 18.206 1 104.06 ? C1B NAD 301 A 1 HETATM 13 N N9A NAD . . . G 2 9.403 -28.948 16.873 1 101.97 ? N9A NAD 301 A 1 HETATM 14 C C8A NAD . . . G 2 9.609 -29.581 15.74 1 99.4 ? C8A NAD 301 A 1 HETATM 15 N N7A NAD . . . G 2 8.963 -28.96 14.763 1 96.14 ? N7A NAD 301 A 1 HETATM 16 C C5A NAD . . . G 2 8.32 -27.888 15.289 1 98.23 ? C5A NAD 301 A 1 HETATM 17 C C6A NAD . . . G 2 7.494 -26.872 14.773 1 96.37 ? C6A NAD 301 A 1 HETATM 18 N N6A NAD . . . G 2 7.173 -26.841 13.383 1 92.42 ? N6A NAD 301 A 1 HETATM 19 N N1A NAD . . . G 2 7.015 -25.946 15.586 1 94.83 ? N1A NAD 301 A 1 HETATM 20 C C2A NAD . . . G 2 7.307 -25.97 16.867 1 95.19 ? C2A NAD 301 A 1 HETATM 21 N N3A NAD . . . G 2 8.075 -26.9 17.394 1 98.69 ? N3A NAD 301 A 1 HETATM 22 C C4A NAD . . . G 2 8.597 -27.877 16.625 1 99.74 ? C4A NAD 301 A 1 HETATM 23 O O3 NAD . . . G 2 14.08 -33.842 21.849 1 118.23 ? O3 NAD 301 A 1 HETATM 24 P PN NAD . . . G 2 15.699 -33.454 22.019 1 105.48 ? PN NAD 301 A 1 HETATM 25 O O1N NAD . . . G 2 16.503 -34.703 21.872 1 104.46 ? O1N NAD 301 A 1 HETATM 26 O O2N NAD . . . G 2 15.898 -32.977 23.474 1 101.7 ? O2N NAD 301 A 1 HETATM 27 O O5D NAD . . . G 2 16.272 -32.405 20.793 1 93.84 ? O5D NAD 301 A 1 HETATM 28 C C5D NAD . . . G 2 16.483 -30.946 20.907 1 96.5 ? C5D NAD 301 A 1 HETATM 29 C C4D NAD . . . G 2 17.568 -30.432 19.894 1 91.83 ? C4D NAD 301 A 1 HETATM 30 O O4D NAD . . . G 2 18.744 -30.942 20.139 1 86.54 ? O4D NAD 301 A 1 HETATM 31 C C3D NAD . . . G 2 17.34 -30.789 18.377 1 93.27 ? C3D NAD 301 A 1 HETATM 32 O O3D NAD . . . G 2 16.636 -29.812 17.752 1 96.39 ? O3D NAD 301 A 1 HETATM 33 C C2D NAD . . . G 2 18.736 -30.896 17.759 1 89.43 ? C2D NAD 301 A 1 HETATM 34 O O2D NAD . . . G 2 18.998 -29.847 16.72 1 88.48 ? O2D NAD 301 A 1 HETATM 35 C C1D NAD . . . G 2 19.593 -30.752 18.786 1 85.36 ? C1D NAD 301 A 1 HETATM 36 N N1N NAD . . . G 2 20.635 -31.729 18.76 1 88.48 ? N1N NAD 301 A 1 HETATM 37 C C2N NAD . . . G 2 20.353 -32.958 19.193 1 88.43 ? C2N NAD 301 A 1 HETATM 38 C C3N NAD . . . G 2 21.372 -33.93 19.188 1 85.93 ? C3N NAD 301 A 1 HETATM 39 C C7N NAD . . . G 2 21.072 -35.343 19.673 1 89.57 ? C7N NAD 301 A 1 HETATM 40 O O7N NAD . . . G 2 21.9 -36.193 19.581 1 89.87 ? O7N NAD 301 A 1 HETATM 41 N N7N NAD . . . G 2 19.712 -35.662 20.271 1 101.68 ? N7N NAD 301 A 1 HETATM 42 C C4N NAD . . . G 2 22.639 -33.612 18.746 1 84.45 ? C4N NAD 301 A 1 HETATM 43 C C5N NAD . . . G 2 22.872 -32.301 18.309 1 86.93 ? C5N NAD 301 A 1 HETATM 44 C C6N NAD . . . G 2 21.822 -31.376 18.334 1 88.38 ? C6N NAD 301 A 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 44 #