data_4B66 # _model_server_result.job_id tISxo3JAxjePiLfYw9qFzQ _model_server_result.datetime_utc '2024-10-17 01:46:21' _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 4b66 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1505}' # _entry.id 4B66 # _exptl.entry_id 4B66 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 4B66 _cell.length_a 78.01 _cell.length_b 84.87 _cell.length_c 145.411 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4B66 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 4_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -84.87 0 3 'crystal symmetry operation' 2_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -78.01 -84.87 0 4 'crystal symmetry operation' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -78.01 0 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 # _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 341 n n PA O2A NAP sing 342 n n PA O5B NAP sing 343 n n PA O3 NAP sing 344 n n O2A HOA2 NAP sing 345 n n O5B C5B NAP sing 346 n n C5B C4B NAP sing 347 n n C5B H51A NAP sing 348 n n C5B H52A NAP sing 349 n n C4B O4B NAP sing 350 n n C4B C3B NAP sing 351 n n C4B H4B NAP sing 352 n n O4B C1B NAP sing 353 n n C3B O3B NAP sing 354 n n C3B C2B NAP sing 355 n n C3B H3B NAP sing 356 n n O3B HO3A NAP sing 357 n n C2B O2B NAP sing 358 n n C2B C1B NAP sing 359 n n C2B H2B NAP sing 360 n n O2B P2B NAP sing 361 n n C1B N9A NAP sing 362 n n C1B H1B NAP sing 363 n n N9A C8A NAP sing 364 n y N9A C4A NAP sing 365 n y C8A N7A NAP doub 366 n y C8A H8A NAP sing 367 n n N7A C5A NAP sing 368 n y C5A C6A NAP sing 369 n y C5A C4A NAP doub 370 n y C6A N6A NAP sing 371 n n C6A N1A NAP doub 372 n y N6A H61A NAP sing 373 n n N6A H62A NAP sing 374 n n N1A C2A NAP sing 375 n y C2A N3A NAP doub 376 n y C2A H2A NAP sing 377 n n N3A C4A NAP sing 378 n y O3 PN NAP sing 379 n n PN O1N NAP doub 380 n n PN O2N NAP sing 381 n n PN O5D NAP sing 382 n n O5D C5D NAP sing 383 n n C5D C4D NAP sing 384 n n C5D H51N NAP sing 385 n n C5D H52N NAP sing 386 n n C4D O4D NAP sing 387 n n C4D C3D NAP sing 388 n n C4D H4D NAP sing 389 n n O4D C1D NAP sing 390 n n C3D O3D NAP sing 391 n n C3D C2D NAP sing 392 n n C3D H3D NAP sing 393 n n O3D HO3N NAP sing 394 n n C2D O2D NAP sing 395 n n C2D C1D NAP sing 396 n n C2D H2D NAP sing 397 n n O2D HO2N NAP sing 398 n n C1D N1N NAP sing 399 n n C1D H1D NAP sing 400 n n N1N C2N NAP sing 401 n y N1N C6N NAP doub 402 n y C2N C3N NAP doub 403 n y C2N H2N NAP sing 404 n n C3N C7N NAP sing 405 n n C3N C4N NAP sing 406 n y C7N O7N NAP doub 407 n n C7N N7N NAP sing 408 n n N7N H71N NAP sing 409 n n N7N H72N NAP sing 410 n n C4N C5N NAP doub 411 n y C4N H4N NAP sing 412 n n C5N C6N NAP sing 413 n y C5N H5N NAP sing 414 n n C6N H6N NAP sing 415 n n P2B O1X NAP doub 416 n n P2B O2X NAP sing 417 n n P2B O3X NAP sing 418 n n O2X HOP2 NAP sing 419 n n O3X HOP3 NAP sing 420 n n # _atom_sites.entry_id 4B66 _atom_sites.fract_transf_matrix[1][1] 0.012819 _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] 0.011783 _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] 0.006877 _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 ARG A 1 503 503 ARG ARG . C 3 FAD A 1 1504 1504 FAD FAD . D 4 NAP A 1 1505 1505 NAP NAP . E 5 SO4 A 1 1506 1506 SO4 SO4 . F 5 SO4 A 1 1507 1507 SO4 SO4 . G 6 GOL A 1 1508 1508 GOL GOL . H 6 GOL A 1 1509 1509 GOL GOL . I 6 GOL A 1 1510 1510 GOL GOL . J 6 GOL A 1 1511 1511 GOL GOL . K 6 GOL A 1 1512 1512 GOL GOL . L 7 HOH A 1 2001 2001 HOH HOH . L 7 HOH A 2 2002 2002 HOH HOH . L 7 HOH A 3 2003 2003 HOH HOH . L 7 HOH A 4 2004 2004 HOH HOH . L 7 HOH A 5 2005 2005 HOH HOH . L 7 HOH A 6 2006 2006 HOH HOH . L 7 HOH A 7 2007 2007 HOH HOH . L 7 HOH A 8 2008 2008 HOH HOH . L 7 HOH A 9 2009 2009 HOH HOH . L 7 HOH A 10 2010 2010 HOH HOH . L 7 HOH A 11 2011 2011 HOH HOH . L 7 HOH A 12 2012 2012 HOH HOH . L 7 HOH A 13 2013 2013 HOH HOH . L 7 HOH A 14 2014 2014 HOH HOH . L 7 HOH A 15 2015 2015 HOH HOH . L 7 HOH A 16 2016 2016 HOH HOH . L 7 HOH A 17 2017 2017 HOH HOH . L 7 HOH A 18 2018 2018 HOH HOH . L 7 HOH A 19 2019 2019 HOH HOH . L 7 HOH A 20 2020 2020 HOH HOH . L 7 HOH A 21 2021 2021 HOH HOH . L 7 HOH A 22 2022 2022 HOH HOH . L 7 HOH A 23 2023 2023 HOH HOH . L 7 HOH A 24 2024 2024 HOH HOH . L 7 HOH A 25 2025 2025 HOH HOH . L 7 HOH A 26 2026 2026 HOH HOH . L 7 HOH A 27 2027 2027 HOH HOH . L 7 HOH A 28 2028 2028 HOH HOH . L 7 HOH A 29 2029 2029 HOH HOH . L 7 HOH A 30 2030 2030 HOH HOH . L 7 HOH A 31 2031 2031 HOH HOH . L 7 HOH A 32 2032 2032 HOH HOH . L 7 HOH A 33 2033 2033 HOH HOH . L 7 HOH A 34 2034 2034 HOH HOH . L 7 HOH A 35 2035 2035 HOH HOH . L 7 HOH A 36 2036 2036 HOH HOH . L 7 HOH A 37 2037 2037 HOH HOH . L 7 HOH A 38 2038 2038 HOH HOH . L 7 HOH A 39 2039 2039 HOH HOH . L 7 HOH A 40 2040 2040 HOH HOH . L 7 HOH A 41 2041 2041 HOH HOH . L 7 HOH A 42 2042 2042 HOH HOH . L 7 HOH A 43 2043 2043 HOH HOH . L 7 HOH A 44 2044 2044 HOH HOH . L 7 HOH A 45 2045 2045 HOH HOH . L 7 HOH A 46 2046 2046 HOH HOH . L 7 HOH A 47 2047 2047 HOH HOH . L 7 HOH A 48 2048 2048 HOH HOH . L 7 HOH A 49 2049 2049 HOH HOH . L 7 HOH A 50 2050 2050 HOH HOH . L 7 HOH A 51 2051 2051 HOH HOH . L 7 HOH A 52 2052 2052 HOH HOH . L 7 HOH A 53 2053 2053 HOH HOH . L 7 HOH A 54 2054 2054 HOH HOH . L 7 HOH A 55 2055 2055 HOH HOH . L 7 HOH A 56 2056 2056 HOH HOH . L 7 HOH A 57 2057 2057 HOH HOH . L 7 HOH A 58 2058 2058 HOH HOH . L 7 HOH A 59 2059 2059 HOH HOH . L 7 HOH A 60 2060 2060 HOH HOH . L 7 HOH A 61 2061 2061 HOH HOH . L 7 HOH A 62 2062 2062 HOH HOH . L 7 HOH A 63 2063 2063 HOH HOH . L 7 HOH A 64 2064 2064 HOH HOH . L 7 HOH A 65 2065 2065 HOH HOH . L 7 HOH A 66 2066 2066 HOH HOH . L 7 HOH A 67 2067 2067 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 . . . D 4 -16.783 -29.521 7.068 1 14.58 ? PA NAP 1505 A 1 HETATM 2 O O1A NAP . . . D 4 -17.761 -30.662 6.933 1 14.37 ? O1A NAP 1505 A 1 HETATM 3 O O2A NAP . . . D 4 -15.511 -29.721 7.875 1 14.54 ? O2A NAP 1505 A 1 HETATM 4 O O5B NAP . . . D 4 -16.437 -29.042 5.565 1 14.4 ? O5B NAP 1505 A 1 HETATM 5 C C5B NAP . . . D 4 -15.536 -27.966 5.289 1 14.68 ? C5B NAP 1505 A 1 HETATM 6 C C4B NAP . . . D 4 -15.419 -27.78 3.773 1 15.24 ? C4B NAP 1505 A 1 HETATM 7 O O4B NAP . . . D 4 -14.506 -26.721 3.454 1 15.59 ? O4B NAP 1505 A 1 HETATM 8 C C3B NAP . . . D 4 -14.927 -29.013 3.008 1 15.04 ? C3B NAP 1505 A 1 HETATM 9 O O3B NAP . . . D 4 -15.722 -29.148 1.817 1 14.61 ? O3B NAP 1505 A 1 HETATM 10 C C2B NAP . . . D 4 -13.495 -28.708 2.618 1 15.56 ? C2B NAP 1505 A 1 HETATM 11 O O2B NAP . . . D 4 -13.199 -29.237 1.325 1 16.29 ? O2B NAP 1505 A 1 HETATM 12 C C1B NAP . . . D 4 -13.486 -27.19 2.549 1 15.63 ? C1B NAP 1505 A 1 HETATM 13 N N9A NAP . . . D 4 -12.208 -26.594 2.989 1 15.44 ? N9A NAP 1505 A 1 HETATM 14 C C8A NAP . . . D 4 -11.659 -26.769 4.209 1 15.03 ? C8A NAP 1505 A 1 HETATM 15 N N7A NAP . . . D 4 -10.51 -26.075 4.331 1 14.71 ? N7A NAP 1505 A 1 HETATM 16 C C5A NAP . . . D 4 -10.321 -25.429 3.17 1 14.95 ? C5A NAP 1505 A 1 HETATM 17 C C6A NAP . . . D 4 -9.291 -24.513 2.639 1 15.18 ? C6A NAP 1505 A 1 HETATM 18 N N6A NAP . . . D 4 -8.24 -24.187 3.434 1 15.88 ? N6A NAP 1505 A 1 HETATM 19 N N1A NAP . . . D 4 -9.439 -24.037 1.374 1 15.42 ? N1A NAP 1505 A 1 HETATM 20 C C2A NAP . . . D 4 -10.503 -24.38 0.613 1 15.53 ? C2A NAP 1505 A 1 HETATM 21 N N3A NAP . . . D 4 -11.482 -25.212 1.041 1 15.59 ? N3A NAP 1505 A 1 HETATM 22 C C4A NAP . . . D 4 -11.446 -25.76 2.285 1 14.89 ? C4A NAP 1505 A 1 HETATM 23 O O3 NAP . . . D 4 -17.481 -28.221 7.72 1 13.78 ? O3 NAP 1505 A 1 HETATM 24 P PN NAP . . . D 4 -19.038 -28.038 8.089 1 13.71 ? PN NAP 1505 A 1 HETATM 25 O O1N NAP . . . D 4 -19.789 -27.943 6.765 1 12.82 ? O1N NAP 1505 A 1 HETATM 26 O O2N NAP . . . D 4 -19.141 -26.938 9.13 1 13.28 ? O2N NAP 1505 A 1 HETATM 27 O O5D NAP . . . D 4 -19.403 -29.364 8.928 1 13.83 ? O5D NAP 1505 A 1 HETATM 28 C C5D NAP . . . D 4 -18.753 -29.614 10.183 1 13.75 ? C5D NAP 1505 A 1 HETATM 29 C C4D NAP . . . D 4 -19.714 -30.214 11.213 1 13.64 ? C4D NAP 1505 A 1 HETATM 30 O O4D NAP . . . D 4 -20.899 -29.432 11.491 1 13.79 ? O4D NAP 1505 A 1 HETATM 31 C C3D NAP . . . D 4 -20.203 -31.553 10.714 1 13.33 ? C3D NAP 1505 A 1 HETATM 32 O O3D NAP . . . D 4 -20.233 -32.352 11.895 1 13.37 ? O3D NAP 1505 A 1 HETATM 33 C C2D NAP . . . D 4 -21.601 -31.28 10.174 1 13.41 ? C2D NAP 1505 A 1 HETATM 34 O O2D NAP . . . D 4 -22.442 -32.443 10.15 1 13.24 ? O2D NAP 1505 A 1 HETATM 35 C C1D NAP . . . D 4 -22.085 -30.202 11.145 1 13.59 ? C1D NAP 1505 A 1 HETATM 36 N N1N NAP . . . D 4 -23.241 -29.435 10.606 1 13.24 ? N1N NAP 1505 A 1 HETATM 37 C C2N NAP . . . D 4 -24.468 -29.865 10.906 1 12.5 ? C2N NAP 1505 A 1 HETATM 38 C C3N NAP . . . D 4 -25.599 -29.21 10.439 1 12.52 ? C3N NAP 1505 A 1 HETATM 39 C C7N NAP . . . D 4 -26.957 -29.749 10.803 1 12.57 ? C7N NAP 1505 A 1 HETATM 40 O O7N NAP . . . D 4 -27.152 -30.165 11.945 1 12.14 ? O7N NAP 1505 A 1 HETATM 41 N N7N NAP . . . D 4 -27.904 -29.772 9.855 1 12.03 ? N7N NAP 1505 A 1 HETATM 42 C C4N NAP . . . D 4 -25.462 -28.072 9.643 1 12.19 ? C4N NAP 1505 A 1 HETATM 43 C C5N NAP . . . D 4 -24.183 -27.62 9.33 1 12.29 ? C5N NAP 1505 A 1 HETATM 44 C C6N NAP . . . D 4 -23.086 -28.336 9.831 1 13.21 ? C6N NAP 1505 A 1 HETATM 45 P P2B NAP . . . D 4 -12.415 -30.645 1.127 1 16.79 ? P2B NAP 1505 A 1 HETATM 46 O O1X NAP . . . D 4 -10.939 -30.298 1.171 1 14.99 ? O1X NAP 1505 A 1 HETATM 47 O O2X NAP . . . D 4 -12.882 -31.458 2.321 1 14.84 ? O2X NAP 1505 A 1 HETATM 48 O O3X NAP . . . D 4 -12.841 -31.131 -0.251 1 15.83 ? O3X NAP 1505 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #