data_2PKQ # _model_server_result.job_id OJ2JbK6QH5MjSd3cJzaghw _model_server_result.datetime_utc '2024-11-04 22:46:24' _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 2pkq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":367}' # _entry.id 2PKQ # _exptl.entry_id 2PKQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-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 102.52 _cell.angle_gamma 90 _cell.entry_id 2PKQ _cell.length_a 186.147 _cell.length_b 215.687 _cell.length_c 81.469 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PKQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _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 PISA,PQS tetrameric 4 author_and_software_defined_assembly 1 PQS tetrameric 4 author_and_software_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,C,D,G,H,I,J,K,L,M,N,O,P,Q,R,S 1 1 E,F,T,U,V,W,X,Y,Z,AA 2 1,2 # 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' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -17.660882 0 79.531699 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 H N N ? 4 K N N ? 4 O N N ? 4 S N N ? 4 W N N ? 4 AA 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 355 O CYS 349 1_555 A SG CYS 364 O CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf2 F SG CYS 355 T CYS 349 1_555 F SG CYS 364 T CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _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 235 n n PA O2A NDP sing 236 n n PA O5B NDP sing 237 n n PA O3 NDP sing 238 n n O2A HOA2 NDP sing 239 n n O5B C5B NDP sing 240 n n C5B C4B NDP sing 241 n n C5B H51A NDP sing 242 n n C5B H52A NDP sing 243 n n C4B O4B NDP sing 244 n n C4B C3B NDP sing 245 n n C4B H4B NDP sing 246 n n O4B C1B NDP sing 247 n n C3B O3B NDP sing 248 n n C3B C2B NDP sing 249 n n C3B H3B NDP sing 250 n n O3B HO3A NDP sing 251 n n C2B O2B NDP sing 252 n n C2B C1B NDP sing 253 n n C2B H2B NDP sing 254 n n O2B P2B NDP sing 255 n n C1B N9A NDP sing 256 n n C1B H1B NDP sing 257 n n N9A C8A NDP sing 258 n y N9A C4A NDP sing 259 n y C8A N7A NDP doub 260 n y C8A H8A NDP sing 261 n n N7A C5A NDP sing 262 n y C5A C6A NDP sing 263 n y C5A C4A NDP doub 264 n y C6A N6A NDP sing 265 n n C6A N1A NDP doub 266 n y N6A H61A NDP sing 267 n n N6A H62A NDP sing 268 n n N1A C2A NDP sing 269 n y C2A N3A NDP doub 270 n y C2A H2A NDP sing 271 n n N3A C4A NDP sing 272 n y O3 PN NDP sing 273 n n PN O1N NDP doub 274 n n PN O2N NDP sing 275 n n PN O5D NDP sing 276 n n O2N H21N NDP sing 277 n n O5D C5D NDP sing 278 n n C5D C4D NDP sing 279 n n C5D H51N NDP sing 280 n n C5D H52N NDP sing 281 n n C4D O4D NDP sing 282 n n C4D C3D NDP sing 283 n n C4D H4D NDP sing 284 n n O4D C1D NDP sing 285 n n C3D O3D NDP sing 286 n n C3D C2D NDP sing 287 n n C3D H3D NDP sing 288 n n O3D HO3N NDP sing 289 n n C2D O2D NDP sing 290 n n C2D C1D NDP sing 291 n n C2D H2D NDP sing 292 n n O2D HO2N NDP sing 293 n n C1D N1N NDP sing 294 n n C1D H1D NDP sing 295 n n N1N C2N NDP sing 296 n n N1N C6N NDP sing 297 n n C2N C3N NDP doub 298 n n C2N H2N NDP sing 299 n n C3N C7N NDP sing 300 n n C3N C4N NDP sing 301 n n C7N O7N NDP doub 302 n n C7N N7N NDP sing 303 n n N7N H71N NDP sing 304 n n N7N H72N NDP sing 305 n n C4N C5N NDP sing 306 n n C4N H41N NDP sing 307 n n C4N H42N NDP sing 308 n n C5N C6N NDP doub 309 n n C5N H5N NDP sing 310 n n C6N H6N NDP sing 311 n n P2B O1X NDP doub 312 n n P2B O2X NDP sing 313 n n P2B O3X NDP sing 314 n n O2X HOP2 NDP sing 315 n n O3X HOP3 NDP sing 316 n n # _atom_sites.entry_id 2PKQ _atom_sites.fract_transf_matrix[1][1] 0.005372 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001193 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004636 _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] 0.012573 _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 3 SO4 O 1 370 370 SO4 SO4 . H 4 NDP O 1 363 363 NDP NDP . I 3 SO4 P 1 371 371 SO4 SO4 . J 3 SO4 P 1 372 372 SO4 SO4 . K 4 NDP P 1 364 364 NDP NDP . L 3 SO4 Q 1 373 373 SO4 SO4 . M 3 SO4 Q 1 382 382 SO4 SO4 . N 3 SO4 Q 1 384 384 SO4 SO4 . O 4 NDP Q 1 365 365 NDP NDP . P 3 SO4 R 1 374 374 SO4 SO4 . Q 3 SO4 R 1 375 375 SO4 SO4 . R 3 SO4 R 1 381 381 SO4 SO4 . S 4 NDP R 1 366 366 NDP NDP . T 3 SO4 S 1 376 376 SO4 SO4 . U 3 SO4 S 1 377 377 SO4 SO4 . V 3 SO4 S 1 380 380 SO4 SO4 . W 4 NDP S 1 367 367 NDP NDP . X 3 SO4 T 1 378 378 SO4 SO4 . Y 3 SO4 T 1 379 379 SO4 SO4 . Z 3 SO4 T 1 383 383 SO4 SO4 . AA 4 NDP T 1 368 368 NDP NDP . # 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 . . . W 4 -0.92 63.15 58.249 1 32.89 ? PA NDP 367 S 1 HETATM 2 O O1A NDP . . . W 4 -2.285 62.747 58.619 1 32.13 ? O1A NDP 367 S 1 HETATM 3 O O2A NDP . . . W 4 -0.251 62.5 57.107 1 33.53 ? O2A NDP 367 S 1 HETATM 4 O O5B NDP . . . W 4 0.087 63.013 59.518 1 39.05 ? O5B NDP 367 S 1 HETATM 5 C C5B NDP . . . W 4 -0.269 63.165 60.91 1 48.3 ? C5B NDP 367 S 1 HETATM 6 C C4B NDP . . . W 4 0.277 61.939 61.662 1 55.41 ? C4B NDP 367 S 1 HETATM 7 O O4B NDP . . . W 4 0.172 62.074 63.099 1 58.89 ? O4B NDP 367 S 1 HETATM 8 C C3B NDP . . . W 4 -0.431 60.637 61.356 1 59.09 ? C3B NDP 367 S 1 HETATM 9 O O3B NDP . . . W 4 0.463 59.546 61.215 1 57.62 ? O3B NDP 367 S 1 HETATM 10 C C2B NDP . . . W 4 -1.222 60.377 62.611 1 63.45 ? C2B NDP 367 S 1 HETATM 11 O O2B NDP . . . W 4 -1.572 59.011 62.79 1 70.77 ? O2B NDP 367 S 1 HETATM 12 C C1B NDP . . . W 4 -0.275 60.835 63.649 1 63.53 ? C1B NDP 367 S 1 HETATM 13 N N9A NDP . . . W 4 -0.928 61.088 64.93 1 66.84 ? N9A NDP 367 S 1 HETATM 14 C C8A NDP . . . W 4 -2.171 61.562 65.148 1 68.07 ? C8A NDP 367 S 1 HETATM 15 N N7A NDP . . . W 4 -2.362 61.804 66.452 1 68.33 ? N7A NDP 367 S 1 HETATM 16 C C5A NDP . . . W 4 -1.218 61.455 67.008 1 69.38 ? C5A NDP 367 S 1 HETATM 17 C C6A NDP . . . W 4 -0.954 61.52 68.367 1 70.8 ? C6A NDP 367 S 1 HETATM 18 N N6A NDP . . . W 4 -1.869 61.937 69.219 1 71.74 ? N6A NDP 367 S 1 HETATM 19 N N1A NDP . . . W 4 0.277 61.128 68.752 1 72.18 ? N1A NDP 367 S 1 HETATM 20 C C2A NDP . . . W 4 1.174 60.717 67.843 1 72.73 ? C2A NDP 367 S 1 HETATM 21 N N3A NDP . . . W 4 0.926 60.65 66.521 1 71.29 ? N3A NDP 367 S 1 HETATM 22 C C4A NDP . . . W 4 -0.291 61.015 66.085 1 69.08 ? C4A NDP 367 S 1 HETATM 23 O O3 NDP . . . W 4 -0.884 64.692 57.97 1 28.38 ? O3 NDP 367 S 1 HETATM 24 P PN NDP . . . W 4 0.07 65.66 57.162 1 25.04 ? PN NDP 367 S 1 HETATM 25 O O1N NDP . . . W 4 -0.501 65.965 55.815 1 24.56 ? O1N NDP 367 S 1 HETATM 26 O O2N NDP . . . W 4 1.443 65.113 57.248 1 24.2 ? O2N NDP 367 S 1 HETATM 27 O O5D NDP . . . W 4 0.106 67.031 57.96 1 24.9 ? O5D NDP 367 S 1 HETATM 28 C C5D NDP . . . W 4 0.831 67.112 59.188 1 24.87 ? C5D NDP 367 S 1 HETATM 29 C C4D NDP . . . W 4 0.977 68.587 59.549 1 23.64 ? C4D NDP 367 S 1 HETATM 30 O O4D NDP . . . W 4 1.725 69.283 58.537 1 23.29 ? O4D NDP 367 S 1 HETATM 31 C C3D NDP . . . W 4 -0.319 69.372 59.657 1 23 ? C3D NDP 367 S 1 HETATM 32 O O3D NDP . . . W 4 -0.096 70.528 60.487 1 25.37 ? O3D NDP 367 S 1 HETATM 33 C C2D NDP . . . W 4 -0.519 69.93 58.264 1 21.59 ? C2D NDP 367 S 1 HETATM 34 O O2D NDP . . . W 4 -1.35 71.11 58.245 1 21.05 ? O2D NDP 367 S 1 HETATM 35 C C1D NDP . . . W 4 0.908 70.285 57.929 1 22.34 ? C1D NDP 367 S 1 HETATM 36 N N1N NDP . . . W 4 1.166 70.348 56.477 1 22.33 ? N1N NDP 367 S 1 HETATM 37 C C2N NDP . . . W 4 0.536 69.45 55.565 1 23.4 ? C2N NDP 367 S 1 HETATM 38 C C3N NDP . . . W 4 0.779 69.543 54.187 1 22.55 ? C3N NDP 367 S 1 HETATM 39 C C7N NDP . . . W 4 0.362 68.449 53.167 1 22.54 ? C7N NDP 367 S 1 HETATM 40 O O7N NDP . . . W 4 0.432 68.694 51.96 1 21.26 ? O7N NDP 367 S 1 HETATM 41 N N7N NDP . . . W 4 -0.247 67.352 53.629 1 23.82 ? N7N NDP 367 S 1 HETATM 42 C C4N NDP . . . W 4 1.617 70.576 53.755 1 21.61 ? C4N NDP 367 S 1 HETATM 43 C C5N NDP . . . W 4 2.214 71.476 54.648 1 21.78 ? C5N NDP 367 S 1 HETATM 44 C C6N NDP . . . W 4 2.005 71.368 56.017 1 22.16 ? C6N NDP 367 S 1 HETATM 45 P P2B NDP . . . W 4 -3.157 58.668 62.76 1 76.62 ? P2B NDP 367 S 1 HETATM 46 O O1X NDP . . . W 4 -3.904 59.259 64.066 1 76.48 ? O1X NDP 367 S 1 HETATM 47 O O2X NDP . . . W 4 -3.849 59.34 61.466 1 75.34 ? O2X NDP 367 S 1 HETATM 48 O O3X NDP . . . W 4 -3.331 57.202 62.703 1 76.66 ? O3X NDP 367 S 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #