data_2PKR # _model_server_result.job_id zSzJqLYJJM1hSnumnYISpw _model_server_result.datetime_utc '2024-11-04 22:52:07' _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 2pkr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"BB","auth_seq_id":369}' # _entry.id 2PKR # _exptl.entry_id 2PKR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 12 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.04 _cell.angle_gamma 90 _cell.entry_id 2PKR _cell.length_a 105.377 _cell.length_b 217.707 _cell.length_c 114.793 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PKR _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 ? tetrameric 4 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,GB 1 1 E,F,G,H,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA 2 1 I,J,K,L,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,HB,IB,JB,KB 3 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 ? 3 P N N ? 3 T N N ? 3 X N N ? 3 CA N N ? 3 GA N N ? 3 KA N N ? 3 NA N N ? 3 QA N N ? 3 UA N N ? 3 YA N N ? 3 BB N N ? 3 FB 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 disulf ? disulf1 A SG CYS 203 O CYS 200 1_555 B SG CYS 203 R CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf2 C SG CYS 203 P CYS 200 1_555 D SG CYS 203 Q CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? disulf ? disulf3 E SG CYS 203 A CYS 200 1_555 F SG CYS 203 B CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf4 G SG CYS 203 C CYS 200 1_555 H SG CYS 203 D CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? disulf ? disulf5 I SG CYS 203 H CYS 200 1_555 J SG CYS 203 I CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf6 K SG CYS 203 L CYS 200 1_555 L SG CYS 203 M CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 NDP doub 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 2PKR _atom_sites.fract_transf_matrix[1][1] 0.00949 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000007 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004593 _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] 0.008711 _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 M 2 SO4 O 1 363 347 SO4 SO4 . N 2 SO4 O 1 364 348 SO4 SO4 . O 2 SO4 O 1 371 371 SO4 SO4 . P 3 NDP O 1 372 335 NDP NDP . Q 2 SO4 R 1 363 349 SO4 SO4 . R 2 SO4 R 1 364 350 SO4 SO4 . S 2 SO4 R 1 376 376 SO4 SO4 . T 3 NDP R 1 377 336 NDP NDP . U 2 SO4 P 1 363 351 SO4 SO4 . V 2 SO4 P 1 364 352 SO4 SO4 . W 2 SO4 P 1 372 372 SO4 SO4 . X 3 NDP P 1 373 337 NDP NDP . Y 2 SO4 Q 1 363 353 SO4 SO4 . Z 2 SO4 Q 1 364 354 SO4 SO4 . AA 2 SO4 Q 1 373 373 SO4 SO4 . BA 2 SO4 Q 1 374 374 SO4 SO4 . CA 3 NDP Q 1 375 338 NDP NDP . DA 2 SO4 A 1 363 355 SO4 SO4 . EA 2 SO4 A 1 364 356 SO4 SO4 . FA 2 SO4 A 1 375 375 SO4 SO4 . GA 3 NDP A 1 376 339 NDP NDP . HA 2 SO4 B 1 363 357 SO4 SO4 . IA 2 SO4 B 1 364 358 SO4 SO4 . JA 2 SO4 B 1 377 377 SO4 SO4 . KA 3 NDP B 1 378 340 NDP NDP . LA 2 SO4 C 1 363 359 SO4 SO4 . MA 2 SO4 C 1 364 360 SO4 SO4 . NA 3 NDP C 1 365 341 NDP NDP . OA 2 SO4 D 1 363 361 SO4 SO4 . PA 2 SO4 D 1 364 362 SO4 SO4 . QA 3 NDP D 1 365 342 NDP NDP . RA 2 SO4 H 1 363 363 SO4 SO4 . SA 2 SO4 H 1 364 364 SO4 SO4 . TA 2 SO4 H 1 378 378 SO4 SO4 . UA 3 NDP H 1 379 343 NDP NDP . VA 2 SO4 I 1 365 365 SO4 SO4 . WA 2 SO4 I 1 366 366 SO4 SO4 . XA 2 SO4 I 1 379 379 SO4 SO4 . YA 3 NDP I 1 380 344 NDP NDP . ZA 2 SO4 L 1 367 367 SO4 SO4 . AB 2 SO4 L 1 368 368 SO4 SO4 . BB 3 NDP L 1 369 345 NDP NDP . CB 2 SO4 M 1 369 369 SO4 SO4 . DB 2 SO4 M 1 370 370 SO4 SO4 . EB 2 SO4 M 1 380 380 SO4 SO4 . FB 3 NDP M 1 381 346 NDP NDP . GB 4 HOH O 1 373 3 HOH HOH . HB 4 HOH H 1 380 1 HOH HOH . HB 4 HOH H 2 381 2 HOH HOH . IB 4 HOH I 1 381 4 HOH HOH . JB 4 HOH L 1 370 5 HOH HOH . JB 4 HOH L 2 371 6 HOH HOH . JB 4 HOH L 3 372 7 HOH HOH . JB 4 HOH L 4 373 8 HOH HOH . KB 4 HOH M 1 382 9 HOH HOH . KB 4 HOH M 2 383 10 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 NDP . . . BB 3 1.929 -41.049 -43.93 1 39.67 ? PA NDP 369 L 1 HETATM 2 O O1A NDP . . . BB 3 2.652 -40.001 -43.077 1 40.3 ? O1A NDP 369 L 1 HETATM 3 O O2A NDP . . . BB 3 3.029 -42.164 -44.062 1 40.21 ? O2A NDP 369 L 1 HETATM 4 O O5B NDP . . . BB 3 1.509 -40.637 -45.665 1 42.81 ? O5B NDP 369 L 1 HETATM 5 C C5B NDP . . . BB 3 1.763 -39.544 -46.483 1 45.17 ? C5B NDP 369 L 1 HETATM 6 C C4B NDP . . . BB 3 2.669 -38.541 -46.026 1 45.75 ? C4B NDP 369 L 1 HETATM 7 O O4B NDP . . . BB 3 2.495 -37.089 -46.769 1 45.55 ? O4B NDP 369 L 1 HETATM 8 C C3B NDP . . . BB 3 4.324 -38.595 -45.897 1 47.56 ? C3B NDP 369 L 1 HETATM 9 O O3B NDP . . . BB 3 5.081 -39.563 -46.836 1 47.49 ? O3B NDP 369 L 1 HETATM 10 C C2B NDP . . . BB 3 4.481 -36.995 -45.809 1 49.22 ? C2B NDP 369 L 1 HETATM 11 O O2B NDP . . . BB 3 5.274 -35.967 -45.357 1 54.71 ? O2B NDP 369 L 1 HETATM 12 C C1B NDP . . . BB 3 3.395 -36.251 -46.194 1 47.17 ? C1B NDP 369 L 1 HETATM 13 N N9A NDP . . . BB 3 2.938 -34.899 -46.678 1 44.17 ? N9A NDP 369 L 1 HETATM 14 C C8A NDP . . . BB 3 2.387 -34.047 -45.726 1 44.04 ? C8A NDP 369 L 1 HETATM 15 N N7A NDP . . . BB 3 2.124 -32.853 -45.984 1 44.45 ? N7A NDP 369 L 1 HETATM 16 C C5A NDP . . . BB 3 2.476 -32.756 -47.37 1 43.42 ? C5A NDP 369 L 1 HETATM 17 C C6A NDP . . . BB 3 2.393 -31.593 -48.198 1 41.83 ? C6A NDP 369 L 1 HETATM 18 N N6A NDP . . . BB 3 1.944 -30.438 -47.773 1 41.29 ? N6A NDP 369 L 1 HETATM 19 N N1A NDP . . . BB 3 2.825 -31.838 -49.6 1 42.17 ? N1A NDP 369 L 1 HETATM 20 C C2A NDP . . . BB 3 3.307 -33.038 -49.975 1 42.6 ? C2A NDP 369 L 1 HETATM 21 N N3A NDP . . . BB 3 3.449 -34.23 -49.184 1 43.1 ? N3A NDP 369 L 1 HETATM 22 C C4A NDP . . . BB 3 2.971 -34.059 -47.835 1 44.12 ? C4A NDP 369 L 1 HETATM 23 O O3 NDP . . . BB 3 0.651 -41.676 -43.793 1 38.72 ? O3 NDP 369 L 1 HETATM 24 P PN NDP . . . BB 3 -0.607 -42.537 -44.265 1 36.08 ? PN NDP 369 L 1 HETATM 25 O O1N NDP . . . BB 3 -0.83 -43.498 -43.194 1 34.36 ? O1N NDP 369 L 1 HETATM 26 O O2N NDP . . . BB 3 -0.393 -42.901 -45.823 1 38.25 ? O2N NDP 369 L 1 HETATM 27 O O5D NDP . . . BB 3 -1.945 -41.412 -44.117 1 38.45 ? O5D NDP 369 L 1 HETATM 28 C C5D NDP . . . BB 3 -2.499 -40.458 -45.221 1 38.12 ? C5D NDP 369 L 1 HETATM 29 C C4D NDP . . . BB 3 -3.845 -40.498 -45.031 1 39.35 ? C4D NDP 369 L 1 HETATM 30 O O4D NDP . . . BB 3 -4.668 -41.349 -45.899 1 39.64 ? O4D NDP 369 L 1 HETATM 31 C C3D NDP . . . BB 3 -4.791 -39.64 -44.489 1 39.65 ? C3D NDP 369 L 1 HETATM 32 O O3D NDP . . . BB 3 -4.173 -38.665 -43.592 1 44.17 ? O3D NDP 369 L 1 HETATM 33 C C2D NDP . . . BB 3 -5.725 -41.02 -44.038 1 40.01 ? C2D NDP 369 L 1 HETATM 34 O O2D NDP . . . BB 3 -6.093 -41.379 -43.036 1 40.02 ? O2D NDP 369 L 1 HETATM 35 C C1D NDP . . . BB 3 -4.94 -42.468 -44.888 1 38.16 ? C1D NDP 369 L 1 HETATM 36 N N1N NDP . . . BB 3 -5.619 -43.308 -43.891 1 37.57 ? N1N NDP 369 L 1 HETATM 37 C C2N NDP . . . BB 3 -4.672 -44.285 -43.396 1 35.34 ? C2N NDP 369 L 1 HETATM 38 C C3N NDP . . . BB 3 -4.681 -45.651 -43.6 1 33.89 ? C3N NDP 369 L 1 HETATM 39 C C7N NDP . . . BB 3 -3.681 -46.44 -42.877 1 32.76 ? C7N NDP 369 L 1 HETATM 40 O O7N NDP . . . BB 3 -4.013 -47.574 -42.474 1 31.32 ? O7N NDP 369 L 1 HETATM 41 N N7N NDP . . . BB 3 -2.471 -45.706 -42.697 1 32.27 ? N7N NDP 369 L 1 HETATM 42 C C4N NDP . . . BB 3 -5.755 -46.342 -44.414 1 33.71 ? C4N NDP 369 L 1 HETATM 43 C C5N NDP . . . BB 3 -6.709 -45.236 -44.852 1 34.87 ? C5N NDP 369 L 1 HETATM 44 C C6N NDP . . . BB 3 -6.591 -43.927 -44.567 1 37.53 ? C6N NDP 369 L 1 HETATM 45 P P2B NDP . . . BB 3 5.962 -35.728 -43.907 1 59.71 ? P2B NDP 369 L 1 HETATM 46 O O1X NDP . . . BB 3 6.47 -34.362 -43.531 1 60.41 ? O1X NDP 369 L 1 HETATM 47 O O2X NDP . . . BB 3 5.118 -36.468 -42.859 1 60.34 ? O2X NDP 369 L 1 HETATM 48 O O3X NDP . . . BB 3 7.232 -36.629 -44.413 1 58.94 ? O3X NDP 369 L 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 49 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 48 #