data_2VNJ # _model_server_result.job_id Pmv077SidSlQv4CSkdPDmw _model_server_result.datetime_utc '2024-10-11 00:26:32' _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 2vnj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":274}' # _entry.id 2VNJ # _exptl.entry_id 2VNJ _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 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 120 _cell.entry_id 2VNJ _cell.length_a 68.72 _cell.length_b 68.72 _cell.length_c 128.15 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VNJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 373 n n PA O2A NAP sing 374 n n PA O5B NAP sing 375 n n PA O3 NAP sing 376 n n O2A HOA2 NAP sing 377 n n O5B C5B NAP sing 378 n n C5B C4B NAP sing 379 n n C5B H51A NAP sing 380 n n C5B H52A NAP sing 381 n n C4B O4B NAP sing 382 n n C4B C3B NAP sing 383 n n C4B H4B NAP sing 384 n n O4B C1B NAP sing 385 n n C3B O3B NAP sing 386 n n C3B C2B NAP sing 387 n n C3B H3B NAP sing 388 n n O3B HO3A NAP sing 389 n n C2B O2B NAP sing 390 n n C2B C1B NAP sing 391 n n C2B H2B NAP sing 392 n n O2B P2B NAP sing 393 n n C1B N9A NAP sing 394 n n C1B H1B NAP sing 395 n n N9A C8A NAP sing 396 n y N9A C4A NAP sing 397 n y C8A N7A NAP doub 398 n y C8A H8A NAP sing 399 n n N7A C5A NAP sing 400 n y C5A C6A NAP sing 401 n y C5A C4A NAP doub 402 n y C6A N6A NAP sing 403 n n C6A N1A NAP doub 404 n y N6A H61A NAP sing 405 n n N6A H62A NAP sing 406 n n N1A C2A NAP sing 407 n y C2A N3A NAP doub 408 n y C2A H2A NAP sing 409 n n N3A C4A NAP sing 410 n y O3 PN NAP sing 411 n n PN O1N NAP doub 412 n n PN O2N NAP sing 413 n n PN O5D NAP sing 414 n n O5D C5D NAP sing 415 n n C5D C4D NAP sing 416 n n C5D H51N NAP sing 417 n n C5D H52N NAP sing 418 n n C4D O4D NAP sing 419 n n C4D C3D NAP sing 420 n n C4D H4D NAP sing 421 n n O4D C1D NAP sing 422 n n C3D O3D NAP sing 423 n n C3D C2D NAP sing 424 n n C3D H3D NAP sing 425 n n O3D HO3N NAP sing 426 n n C2D O2D NAP sing 427 n n C2D C1D NAP sing 428 n n C2D H2D NAP sing 429 n n O2D HO2N NAP sing 430 n n C1D N1N NAP sing 431 n n C1D H1D NAP sing 432 n n N1N C2N NAP sing 433 n y N1N C6N NAP doub 434 n y C2N C3N NAP doub 435 n y C2N H2N NAP sing 436 n n C3N C7N NAP sing 437 n n C3N C4N NAP sing 438 n y C7N O7N NAP doub 439 n n C7N N7N NAP sing 440 n n N7N H71N NAP sing 441 n n N7N H72N NAP sing 442 n n C4N C5N NAP doub 443 n y C4N H4N NAP sing 444 n n C5N C6N NAP sing 445 n y C5N H5N NAP sing 446 n n C6N H6N NAP sing 447 n n P2B O1X NAP doub 448 n n P2B O2X NAP sing 449 n n P2B O3X NAP sing 450 n n O2X HOP2 NAP sing 451 n n O3X HOP3 NAP sing 452 n n # _atom_sites.entry_id 2VNJ _atom_sites.fract_transf_matrix[1][1] 0.014552 _atom_sites.fract_transf_matrix[1][2] 0.008401 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016803 _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] 0.007803 _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 FAD A 1 273 273 FAD FAD . C 3 NAP A 1 274 274 NAP NAP . D 4 HTG A 1 275 275 HTG HTG . E 5 HOH A 1 2001 2001 HOH HOH . E 5 HOH A 2 2002 2002 HOH HOH . E 5 HOH A 3 2003 2003 HOH HOH . E 5 HOH A 4 2004 2004 HOH HOH . E 5 HOH A 5 2005 2005 HOH HOH . E 5 HOH A 6 2006 2006 HOH HOH . E 5 HOH A 7 2007 2007 HOH HOH . E 5 HOH A 8 2008 2008 HOH HOH . E 5 HOH A 9 2009 2009 HOH HOH . E 5 HOH A 10 2010 2010 HOH HOH . E 5 HOH A 11 2011 2011 HOH HOH . E 5 HOH A 12 2012 2012 HOH HOH . E 5 HOH A 13 2013 2013 HOH HOH . E 5 HOH A 14 2014 2014 HOH HOH . E 5 HOH A 15 2015 2015 HOH HOH . E 5 HOH A 16 2016 2016 HOH HOH . E 5 HOH A 17 2017 2017 HOH HOH . E 5 HOH A 18 2018 2018 HOH HOH . E 5 HOH A 19 2019 2019 HOH HOH . E 5 HOH A 20 2020 2020 HOH HOH . E 5 HOH A 21 2021 2021 HOH HOH . E 5 HOH A 22 2022 2022 HOH HOH . E 5 HOH A 23 2023 2023 HOH HOH . E 5 HOH A 24 2024 2024 HOH HOH . E 5 HOH A 25 2025 2025 HOH HOH . E 5 HOH A 26 2026 2026 HOH HOH . E 5 HOH A 27 2027 2027 HOH HOH . E 5 HOH A 28 2028 2028 HOH HOH . E 5 HOH A 29 2029 2029 HOH HOH . E 5 HOH A 30 2030 2030 HOH HOH . E 5 HOH A 31 2031 2031 HOH HOH . E 5 HOH A 32 2032 2032 HOH HOH . E 5 HOH A 33 2033 2033 HOH HOH . E 5 HOH A 34 2034 2034 HOH HOH . E 5 HOH A 35 2035 2035 HOH HOH . E 5 HOH A 36 2036 2036 HOH HOH . E 5 HOH A 37 2037 2037 HOH HOH . E 5 HOH A 38 2038 2038 HOH HOH . E 5 HOH A 39 2039 2039 HOH HOH . E 5 HOH A 40 2040 2040 HOH HOH . E 5 HOH A 41 2041 2041 HOH HOH . E 5 HOH A 42 2042 2042 HOH HOH . E 5 HOH A 43 2043 2043 HOH HOH . E 5 HOH A 44 2044 2044 HOH HOH . E 5 HOH A 45 2045 2045 HOH HOH . E 5 HOH A 46 2046 2046 HOH HOH . E 5 HOH A 47 2047 2047 HOH HOH . E 5 HOH A 48 2048 2048 HOH HOH . E 5 HOH A 49 2049 2049 HOH HOH . E 5 HOH A 50 2050 2050 HOH HOH . E 5 HOH A 51 2051 2051 HOH HOH . E 5 HOH A 52 2052 2052 HOH HOH . E 5 HOH A 53 2053 2053 HOH HOH . E 5 HOH A 54 2054 2054 HOH HOH . E 5 HOH A 55 2055 2055 HOH HOH . E 5 HOH A 56 2056 2056 HOH HOH . E 5 HOH A 57 2057 2057 HOH HOH . E 5 HOH A 58 2058 2058 HOH HOH . E 5 HOH A 59 2059 2059 HOH HOH . E 5 HOH A 60 2060 2060 HOH HOH . E 5 HOH A 61 2061 2061 HOH HOH . E 5 HOH A 62 2062 2062 HOH HOH . E 5 HOH A 63 2063 2063 HOH HOH . E 5 HOH A 64 2064 2064 HOH HOH . E 5 HOH A 65 2065 2065 HOH HOH . E 5 HOH A 66 2066 2066 HOH HOH . E 5 HOH A 67 2067 2067 HOH HOH . E 5 HOH A 68 2068 2068 HOH HOH . E 5 HOH A 69 2069 2069 HOH HOH . E 5 HOH A 70 2070 2070 HOH HOH . E 5 HOH A 71 2071 2071 HOH HOH . E 5 HOH A 72 2072 2072 HOH HOH . E 5 HOH A 73 2073 2073 HOH HOH . E 5 HOH A 74 2074 2074 HOH HOH . E 5 HOH A 75 2075 2075 HOH HOH . E 5 HOH A 76 2076 2076 HOH HOH . E 5 HOH A 77 2077 2077 HOH HOH . E 5 HOH A 78 2078 2078 HOH HOH . E 5 HOH A 79 2079 2079 HOH HOH . E 5 HOH A 80 2080 2080 HOH HOH . E 5 HOH A 81 2081 2081 HOH HOH . E 5 HOH A 82 2082 2082 HOH HOH . E 5 HOH A 83 2083 2083 HOH HOH . E 5 HOH A 84 2084 2084 HOH HOH . E 5 HOH A 85 2085 2085 HOH HOH . E 5 HOH A 86 2086 2086 HOH HOH . E 5 HOH A 87 2087 2087 HOH HOH . E 5 HOH A 88 2088 2088 HOH HOH . E 5 HOH A 89 2089 2089 HOH HOH . E 5 HOH A 90 2090 2090 HOH HOH . E 5 HOH A 91 2091 2091 HOH HOH . E 5 HOH A 92 2092 2092 HOH HOH . E 5 HOH A 93 2093 2093 HOH HOH . E 5 HOH A 94 2094 2094 HOH HOH . E 5 HOH A 95 2095 2095 HOH HOH . E 5 HOH A 96 2096 2096 HOH HOH . E 5 HOH A 97 2097 2097 HOH HOH . E 5 HOH A 98 2098 2098 HOH HOH . E 5 HOH A 99 2099 2099 HOH HOH . E 5 HOH A 100 2100 2100 HOH HOH . E 5 HOH A 101 2101 2101 HOH HOH . E 5 HOH A 102 2102 2102 HOH HOH . E 5 HOH A 103 2103 2103 HOH HOH . E 5 HOH A 104 2104 2104 HOH HOH . E 5 HOH A 105 2105 2105 HOH HOH . E 5 HOH A 106 2106 2106 HOH HOH . E 5 HOH A 107 2107 2107 HOH HOH . E 5 HOH A 108 2108 2108 HOH HOH . E 5 HOH A 109 2109 2109 HOH HOH . E 5 HOH A 110 2110 2110 HOH HOH . E 5 HOH A 111 2111 2111 HOH HOH . E 5 HOH A 112 2112 2112 HOH HOH . E 5 HOH A 113 2113 2113 HOH HOH . E 5 HOH A 114 2114 2114 HOH HOH . E 5 HOH A 115 2115 2115 HOH HOH . E 5 HOH A 116 2116 2116 HOH HOH . E 5 HOH A 117 2117 2117 HOH HOH . E 5 HOH A 118 2118 2118 HOH HOH . E 5 HOH A 119 2119 2119 HOH HOH . E 5 HOH A 120 2120 2120 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 . . . C 3 27.007 21.716 9.703 1 55.99 ? PA NAP 274 A 1 HETATM 2 O O1A NAP . . . C 3 26.888 20.692 8.601 1 60.91 ? O1A NAP 274 A 1 HETATM 3 O O2A NAP . . . C 3 27.695 20.943 10.924 1 51.4 ? O2A NAP 274 A 1 HETATM 4 O O5B NAP . . . C 3 25.409 21.634 10.325 1 53.11 ? O5B NAP 274 A 1 HETATM 5 C C5B NAP . . . C 3 24.448 22.553 9.959 1 49.49 ? C5B NAP 274 A 1 HETATM 6 C C4B NAP . . . C 3 24.363 23.764 10.935 1 50.19 ? C4B NAP 274 A 1 HETATM 7 O O4B NAP . . . C 3 25.052 23.772 12.214 1 46.92 ? O4B NAP 274 A 1 HETATM 8 C C3B NAP . . . C 3 24.65 25.094 10.233 1 47 ? C3B NAP 274 A 1 HETATM 9 O O3B NAP . . . C 3 23.516 25.949 10.512 1 40.4 ? O3B NAP 274 A 1 HETATM 10 C C2B NAP . . . C 3 25.876 25.619 10.929 1 45.87 ? C2B NAP 274 A 1 HETATM 11 O O2B NAP . . . C 3 25.76 27.008 10.939 1 43 ? O2B NAP 274 A 1 HETATM 12 C C1B NAP . . . C 3 25.671 25.027 12.33 1 45.69 ? C1B NAP 274 A 1 HETATM 13 N N9A NAP . . . C 3 26.977 24.965 12.987 1 49.41 ? N9A NAP 274 A 1 HETATM 14 C C8A NAP . . . C 3 28.198 24.536 12.433 1 49.17 ? C8A NAP 274 A 1 HETATM 15 N N7A NAP . . . C 3 29.139 24.734 13.371 1 45.64 ? N7A NAP 274 A 1 HETATM 16 C C5A NAP . . . C 3 28.582 25.188 14.52 1 49.86 ? C5A NAP 274 A 1 HETATM 17 C C6A NAP . . . C 3 29.111 25.464 15.795 1 47.8 ? C6A NAP 274 A 1 HETATM 18 N N6A NAP . . . C 3 30.413 25.265 15.976 1 42.17 ? N6A NAP 274 A 1 HETATM 19 N N1A NAP . . . C 3 28.258 25.964 16.782 1 40.35 ? N1A NAP 274 A 1 HETATM 20 C C2A NAP . . . C 3 26.913 26.124 16.478 1 41.81 ? C2A NAP 274 A 1 HETATM 21 N N3A NAP . . . C 3 26.39 25.841 15.254 1 39.17 ? N3A NAP 274 A 1 HETATM 22 C C4A NAP . . . C 3 27.193 25.375 14.297 1 46.46 ? C4A NAP 274 A 1 HETATM 23 O O3 NAP . . . C 3 27.485 23.307 9.197 1 54.16 ? O3 NAP 274 A 1 HETATM 24 P PN NAP . . . C 3 28.919 23.67 8.327 1 56.77 ? PN NAP 274 A 1 HETATM 25 O O1N NAP . . . C 3 29.659 22.409 8.643 1 62.96 ? O1N NAP 274 A 1 HETATM 26 O O2N NAP . . . C 3 29.723 24.91 8.636 1 57.67 ? O2N NAP 274 A 1 HETATM 27 O O5D NAP . . . C 3 28.198 23.676 6.832 1 55.3 ? O5D NAP 274 A 1 HETATM 28 C C5D NAP . . . C 3 28.677 23.283 5.56 1 49.95 ? C5D NAP 274 A 1 HETATM 29 C C4D NAP . . . C 3 29.525 24.476 5.163 1 52.69 ? C4D NAP 274 A 1 HETATM 30 O O4D NAP . . . C 3 30.85 24.465 5.746 1 61.17 ? O4D NAP 274 A 1 HETATM 31 C C3D NAP . . . C 3 29.58 24.619 3.655 1 57.79 ? C3D NAP 274 A 1 HETATM 32 O O3D NAP . . . C 3 28.89 25.815 3.237 1 59.82 ? O3D NAP 274 A 1 HETATM 33 C C2D NAP . . . C 3 31.056 24.703 3.254 1 60.1 ? C2D NAP 274 A 1 HETATM 34 O O2D NAP . . . C 3 31.176 25.817 2.308 1 62.78 ? O2D NAP 274 A 1 HETATM 35 C C1D NAP . . . C 3 31.795 24.741 4.648 1 63.63 ? C1D NAP 274 A 1 HETATM 36 N N1N NAP . . . C 3 32.897 23.68 4.67 1 65.48 ? N1N NAP 274 A 1 HETATM 37 C C2N NAP . . . C 3 34.237 24.16 4.685 1 63.42 ? C2N NAP 274 A 1 HETATM 38 C C3N NAP . . . C 3 35.313 23.259 4.64 1 63.87 ? C3N NAP 274 A 1 HETATM 39 C C7N NAP . . . C 3 36.787 23.715 4.704 1 68.84 ? C7N NAP 274 A 1 HETATM 40 O O7N NAP . . . C 3 37.108 25.149 4.786 1 64 ? O7N NAP 274 A 1 HETATM 41 N N7N NAP . . . C 3 37.732 22.72 4.708 1 64.38 ? N7N NAP 274 A 1 HETATM 42 C C4N NAP . . . C 3 34.972 21.862 4.582 1 63.99 ? C4N NAP 274 A 1 HETATM 43 C C5N NAP . . . C 3 33.592 21.42 4.534 1 63.04 ? C5N NAP 274 A 1 HETATM 44 C C6N NAP . . . C 3 32.52 22.334 4.572 1 61.96 ? C6N NAP 274 A 1 HETATM 45 P P2B NAP . . . C 3 26.727 27.922 10.149 1 45.06 ? P2B NAP 274 A 1 HETATM 46 O O1X NAP . . . C 3 27.806 26.991 10.13 1 54.35 ? O1X NAP 274 A 1 HETATM 47 O O2X NAP . . . C 3 26.257 27.859 8.692 1 52.74 ? O2X NAP 274 A 1 HETATM 48 O O3X NAP . . . C 3 27.036 29.386 10.653 1 44.58 ? O3X NAP 274 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #