data_8JFI # _model_server_result.job_id LhJTk4zpSoo6prgeoA0eeA _model_server_result.datetime_utc '2024-11-28 13:27:57' _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 8jfi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":301}' # _entry.id 8JFI # _exptl.entry_id 8JFI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 90 _cell.angle_gamma 90 _cell.entry_id 8JFI _cell.length_a 85.843 _cell.length_b 252.65 _cell.length_c 166.44 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JFI _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? hexameric 6 author_defined_assembly 1 ? hexameric 6 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,B,G,J,K,L,Q,R,W 1 1 A,B,G,J,K,L,Q,R,W 1 2 C,D,E,F,H,I,M,N,O,P,S,T,U,V 2 1 # 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' 3_455 -x-1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -85.843 0 83.22 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 J N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id E _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 160 _struct_conn.ptnr1_auth_asym_id E _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 159 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id O _struct_conn.ptnr2_label_atom_id O2D _struct_conn.ptnr2_label_comp_id NAP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id E _struct_conn.ptnr2_auth_comp_id NAP _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _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 1.302 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 NAP doub 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 8JFI _atom_sites.fract_transf_matrix[1][1] 0.011649 _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] 0.003958 _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] 0.006008 _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 J 3 NAP A 1 301 301 NAP NAP . K 4 UHC A 1 302 101 UHC SHW . L 3 NAP B 1 301 301 NAP NAP . M 3 NAP C 1 301 301 NAP NAP . N 3 NAP D 1 301 301 NAP NAP . O 3 NAP E 1 301 301 NAP NAP . P 3 NAP F 1 301 301 NAP NAP . Q 5 HOH A 1 401 401 HOH HOH . Q 5 HOH A 2 402 402 HOH HOH . Q 5 HOH A 3 403 403 HOH HOH . Q 5 HOH A 4 404 404 HOH HOH . Q 5 HOH A 5 405 405 HOH HOH . Q 5 HOH A 6 406 406 HOH HOH . Q 5 HOH A 7 407 407 HOH HOH . Q 5 HOH A 8 408 408 HOH HOH . Q 5 HOH A 9 409 409 HOH HOH . Q 5 HOH A 10 410 410 HOH HOH . Q 5 HOH A 11 411 411 HOH HOH . Q 5 HOH A 12 412 412 HOH HOH . Q 5 HOH A 13 413 413 HOH HOH . Q 5 HOH A 14 414 414 HOH HOH . Q 5 HOH A 15 415 415 HOH HOH . Q 5 HOH A 16 416 416 HOH HOH . Q 5 HOH A 17 417 417 HOH HOH . Q 5 HOH A 18 418 418 HOH HOH . Q 5 HOH A 19 419 419 HOH HOH . Q 5 HOH A 20 420 420 HOH HOH . Q 5 HOH A 21 421 421 HOH HOH . Q 5 HOH A 22 422 422 HOH HOH . Q 5 HOH A 23 423 423 HOH HOH . R 5 HOH B 1 401 401 HOH HOH . R 5 HOH B 2 402 402 HOH HOH . R 5 HOH B 3 403 403 HOH HOH . R 5 HOH B 4 404 404 HOH HOH . R 5 HOH B 5 405 405 HOH HOH . R 5 HOH B 6 406 406 HOH HOH . R 5 HOH B 7 407 407 HOH HOH . R 5 HOH B 8 408 408 HOH HOH . R 5 HOH B 9 409 409 HOH HOH . R 5 HOH B 10 410 410 HOH HOH . R 5 HOH B 11 411 411 HOH HOH . R 5 HOH B 12 412 412 HOH HOH . R 5 HOH B 13 413 413 HOH HOH . R 5 HOH B 14 414 414 HOH HOH . R 5 HOH B 15 415 415 HOH HOH . R 5 HOH B 16 416 416 HOH HOH . R 5 HOH B 17 417 417 HOH HOH . R 5 HOH B 18 418 418 HOH HOH . R 5 HOH B 19 419 419 HOH HOH . R 5 HOH B 20 420 420 HOH HOH . R 5 HOH B 21 421 421 HOH HOH . S 5 HOH C 1 401 401 HOH HOH . S 5 HOH C 2 402 402 HOH HOH . S 5 HOH C 3 403 403 HOH HOH . S 5 HOH C 4 404 404 HOH HOH . S 5 HOH C 5 405 405 HOH HOH . S 5 HOH C 6 406 406 HOH HOH . S 5 HOH C 7 407 407 HOH HOH . T 5 HOH D 1 401 401 HOH HOH . T 5 HOH D 2 402 402 HOH HOH . T 5 HOH D 3 403 403 HOH HOH . T 5 HOH D 4 404 404 HOH HOH . T 5 HOH D 5 405 405 HOH HOH . T 5 HOH D 6 406 406 HOH HOH . T 5 HOH D 7 407 407 HOH HOH . T 5 HOH D 8 408 408 HOH HOH . T 5 HOH D 9 409 409 HOH HOH . U 5 HOH E 1 401 401 HOH HOH . U 5 HOH E 2 402 402 HOH HOH . U 5 HOH E 3 403 403 HOH HOH . U 5 HOH E 4 404 404 HOH HOH . U 5 HOH E 5 405 405 HOH HOH . U 5 HOH E 6 406 406 HOH HOH . U 5 HOH E 7 407 407 HOH HOH . U 5 HOH E 8 408 408 HOH HOH . U 5 HOH E 9 409 409 HOH HOH . U 5 HOH E 10 410 410 HOH HOH . V 5 HOH F 1 401 401 HOH HOH . V 5 HOH F 2 402 402 HOH HOH . V 5 HOH F 3 403 403 HOH HOH . V 5 HOH F 4 404 404 HOH HOH . V 5 HOH F 5 405 405 HOH HOH . V 5 HOH F 6 406 406 HOH HOH . V 5 HOH F 7 407 407 HOH HOH . V 5 HOH F 8 408 408 HOH HOH . V 5 HOH F 9 409 409 HOH HOH . V 5 HOH F 10 410 410 HOH HOH . V 5 HOH F 11 411 411 HOH HOH . W 5 HOH G 1 201 201 HOH HOH . W 5 HOH G 2 202 202 HOH HOH . W 5 HOH G 3 203 203 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 NAP . . . J 3 -18.809 -11.886 37.869 1 49.72 ? PA NAP 301 A 1 HETATM 2 O O1A NAP . . . J 3 -18.451 -10.911 38.942 1 45.35 ? O1A NAP 301 A 1 HETATM 3 O O2A NAP . . . J 3 -18.863 -11.498 36.408 1 41.56 ? O2A NAP 301 A 1 HETATM 4 O O5B NAP . . . J 3 -18.037 -13.28 38.108 1 42.24 ? O5B NAP 301 A 1 HETATM 5 C C5B NAP . . . J 3 -18.233 -14.341 37.074 1 39 ? C5B NAP 301 A 1 HETATM 6 C C4B NAP . . . J 3 -16.916 -15.046 36.819 1 42.82 ? C4B NAP 301 A 1 HETATM 7 O O4B NAP . . . J 3 -17.084 -16.255 36.007 1 37.92 ? O4B NAP 301 A 1 HETATM 8 C C3B NAP . . . J 3 -15.766 -14.219 36.201 1 37.42 ? C3B NAP 301 A 1 HETATM 9 O O3B NAP . . . J 3 -14.534 -14.412 36.885 1 39.99 ? O3B NAP 301 A 1 HETATM 10 C C2B NAP . . . J 3 -15.711 -14.834 34.821 1 42.19 ? C2B NAP 301 A 1 HETATM 11 O O2B NAP . . . J 3 -15.077 -14.522 33.598 1 48.54 ? O2B NAP 301 A 1 HETATM 12 C C1B NAP . . . J 3 -15.955 -16.284 35.159 1 39.32 ? C1B NAP 301 A 1 HETATM 13 N N9A NAP . . . J 3 -16.177 -17.111 33.994 1 36.26 ? N9A NAP 301 A 1 HETATM 14 C C8A NAP . . . J 3 -17.104 -16.932 33.013 1 36.65 ? C8A NAP 301 A 1 HETATM 15 N N7A NAP . . . J 3 -17.052 -17.826 32.072 1 34.92 ? N7A NAP 301 A 1 HETATM 16 C C5A NAP . . . J 3 -16.033 -18.643 32.475 1 34.83 ? C5A NAP 301 A 1 HETATM 17 C C6A NAP . . . J 3 -15.499 -19.79 31.895 1 36.16 ? C6A NAP 301 A 1 HETATM 18 N N6A NAP . . . J 3 -15.992 -20.247 30.759 1 35.5 ? N6A NAP 301 A 1 HETATM 19 N N1A NAP . . . J 3 -14.466 -20.407 32.534 1 37.46 ? N1A NAP 301 A 1 HETATM 20 C C2A NAP . . . J 3 -14.015 -19.877 33.675 1 37.21 ? C2A NAP 301 A 1 HETATM 21 N N3A NAP . . . J 3 -14.442 -18.789 34.306 1 38.23 ? N3A NAP 301 A 1 HETATM 22 C C4A NAP . . . J 3 -15.464 -18.22 33.652 1 34.85 ? C4A NAP 301 A 1 HETATM 23 O O3 NAP . . . J 3 -20.313 -12.429 38.237 1 45.94 ? O3 NAP 301 A 1 HETATM 24 P PN NAP . . . J 3 -21.051 -12.781 39.644 1 33.67 ? PN NAP 301 A 1 HETATM 25 O O1N NAP . . . J 3 -22.484 -12.386 39.43 1 42.12 ? O1N NAP 301 A 1 HETATM 26 O O2N NAP . . . J 3 -20.472 -12.144 40.879 1 47.15 ? O2N NAP 301 A 1 HETATM 27 O O5D NAP . . . J 3 -20.901 -14.367 39.772 1 36.73 ? O5D NAP 301 A 1 HETATM 28 C C5D NAP . . . J 3 -21.119 -15.258 38.671 1 34.24 ? C5D NAP 301 A 1 HETATM 29 C C4D NAP . . . J 3 -22.196 -16.334 38.83 1 29.15 ? C4D NAP 301 A 1 HETATM 30 O O4D NAP . . . J 3 -23.25 -15.987 39.711 1 33.61 ? O4D NAP 301 A 1 HETATM 31 C C3D NAP . . . J 3 -22.907 -16.744 37.514 1 31.51 ? C3D NAP 301 A 1 HETATM 32 O O3D NAP . . . J 3 -23.298 -18.111 37.378 1 30.14 ? O3D NAP 301 A 1 HETATM 33 C C2D NAP . . . J 3 -24.121 -15.789 37.51 1 35.54 ? C2D NAP 301 A 1 HETATM 34 O O2D NAP . . . J 3 -24.796 -16.127 36.266 1 30.15 ? O2D NAP 301 A 1 HETATM 35 C C1D NAP . . . J 3 -24.488 -16.052 39.022 1 33.46 ? C1D NAP 301 A 1 HETATM 36 N N1N NAP . . . J 3 -25.471 -15.119 39.68 1 34.36 ? N1N NAP 301 A 1 HETATM 37 C C2N NAP . . . J 3 -25.348 -13.749 39.512 1 36.36 ? C2N NAP 301 A 1 HETATM 38 C C3N NAP . . . J 3 -26.288 -12.905 40.143 1 37.94 ? C3N NAP 301 A 1 HETATM 39 C C7N NAP . . . J 3 -25.885 -11.489 40.54 1 42.23 ? C7N NAP 301 A 1 HETATM 40 O O7N NAP . . . J 3 -26.73 -10.637 40.734 1 44.76 ? O7N NAP 301 A 1 HETATM 41 N N7N NAP . . . J 3 -24.586 -11.228 40.663 1 40.81 ? N7N NAP 301 A 1 HETATM 42 C C4N NAP . . . J 3 -27.494 -13.441 40.483 1 36.06 ? C4N NAP 301 A 1 HETATM 43 C C5N NAP . . . J 3 -27.708 -14.737 40.109 1 34.65 ? C5N NAP 301 A 1 HETATM 44 C C6N NAP . . . J 3 -26.577 -15.554 40.123 1 39.58 ? C6N NAP 301 A 1 HETATM 45 P P2B NAP . . . J 3 -13.95 -13.457 33.258 1 51.11 ? P2B NAP 301 A 1 HETATM 46 O O1X NAP . . . J 3 -12.662 -14.082 32.704 1 53.29 ? O1X NAP 301 A 1 HETATM 47 O O2X NAP . . . J 3 -14.766 -12.81 32.162 1 45.56 ? O2X NAP 301 A 1 HETATM 48 O O3X NAP . . . J 3 -13.726 -12.563 34.517 1 46.82 ? O3X NAP 301 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #