data_3ZV5 # _model_server_result.job_id XhxjS-YWsNWgv_FAQxFkxw _model_server_result.datetime_utc '2024-10-16 10:36:40' _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 3zv5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1277}' # _entry.id 3ZV5 # _exptl.entry_id 3ZV5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _entity.pdbx_number_of_molecules 2 _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 3ZV5 _cell.length_a 75.394 _cell.length_b 75.394 _cell.length_c 173.567 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ZV5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 NAD doub 262 n n PA O2A NAD sing 263 n n PA O5B NAD sing 264 n n PA O3 NAD sing 265 n n O2A HOA2 NAD sing 266 n n O5B C5B NAD sing 267 n n C5B C4B NAD sing 268 n n C5B H51A NAD sing 269 n n C5B H52A NAD sing 270 n n C4B O4B NAD sing 271 n n C4B C3B NAD sing 272 n n C4B H4B NAD sing 273 n n O4B C1B NAD sing 274 n n C3B O3B NAD sing 275 n n C3B C2B NAD sing 276 n n C3B H3B NAD sing 277 n n O3B HO3A NAD sing 278 n n C2B O2B NAD sing 279 n n C2B C1B NAD sing 280 n n C2B H2B NAD sing 281 n n O2B HO2A NAD sing 282 n n C1B N9A NAD sing 283 n n C1B H1B NAD sing 284 n n N9A C8A NAD sing 285 n y N9A C4A NAD sing 286 n y C8A N7A NAD doub 287 n y C8A H8A NAD sing 288 n n N7A C5A NAD sing 289 n y C5A C6A NAD sing 290 n y C5A C4A NAD doub 291 n y C6A N6A NAD sing 292 n n C6A N1A NAD doub 293 n y N6A H61A NAD sing 294 n n N6A H62A NAD sing 295 n n N1A C2A NAD sing 296 n y C2A N3A NAD doub 297 n y C2A H2A NAD sing 298 n n N3A C4A NAD sing 299 n y O3 PN NAD sing 300 n n PN O1N NAD doub 301 n n PN O2N NAD sing 302 n n PN O5D NAD sing 303 n n O5D C5D NAD sing 304 n n C5D C4D NAD sing 305 n n C5D H51N NAD sing 306 n n C5D H52N NAD sing 307 n n C4D O4D NAD sing 308 n n C4D C3D NAD sing 309 n n C4D H4D NAD sing 310 n n O4D C1D NAD sing 311 n n C3D O3D NAD sing 312 n n C3D C2D NAD sing 313 n n C3D H3D NAD sing 314 n n O3D HO3N NAD sing 315 n n C2D O2D NAD sing 316 n n C2D C1D NAD sing 317 n n C2D H2D NAD sing 318 n n O2D HO2N NAD sing 319 n n C1D N1N NAD sing 320 n n C1D H1D NAD sing 321 n n N1N C2N NAD sing 322 n y N1N C6N NAD doub 323 n y C2N C3N NAD doub 324 n y C2N H2N NAD sing 325 n n C3N C7N NAD sing 326 n n C3N C4N NAD sing 327 n y C7N O7N NAD doub 328 n n C7N N7N NAD sing 329 n n N7N H71N NAD sing 330 n n N7N H72N NAD sing 331 n n C4N C5N NAD doub 332 n y C4N H4N NAD sing 333 n n C5N C6N NAD sing 334 n y C5N H5N NAD sing 335 n n C6N H6N NAD sing 336 n n # _atom_sites.entry_id 3ZV5 _atom_sites.fract_transf_matrix[1][1] 0.013264 _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] 0.013264 _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] 0.005761 _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 C 2 NAD A 1 1277 1277 NAD NAD . D 3 BPY A 1 1278 1278 BPY BPY . E 2 NAD B 1 1277 1277 NAD NAD . F 4 HOH A 1 2001 2001 HOH HOH . F 4 HOH A 2 2002 2002 HOH HOH . F 4 HOH A 3 2003 2003 HOH HOH . F 4 HOH A 4 2004 2004 HOH HOH . F 4 HOH A 5 2005 2005 HOH HOH . F 4 HOH A 6 2006 2006 HOH HOH . F 4 HOH A 7 2007 2007 HOH HOH . F 4 HOH A 8 2008 2008 HOH HOH . F 4 HOH A 9 2009 2009 HOH HOH . F 4 HOH A 10 2010 2010 HOH HOH . F 4 HOH A 11 2011 2011 HOH HOH . F 4 HOH A 12 2012 2012 HOH HOH . F 4 HOH A 13 2013 2013 HOH HOH . F 4 HOH A 14 2014 2014 HOH HOH . F 4 HOH A 15 2015 2015 HOH HOH . F 4 HOH A 16 2016 2016 HOH HOH . F 4 HOH A 17 2017 2017 HOH HOH . F 4 HOH A 18 2018 2018 HOH HOH . F 4 HOH A 19 2019 2019 HOH HOH . F 4 HOH A 20 2020 2020 HOH HOH . F 4 HOH A 21 2021 2021 HOH HOH . F 4 HOH A 22 2022 2022 HOH HOH . F 4 HOH A 23 2023 2023 HOH HOH . F 4 HOH A 24 2024 2024 HOH HOH . F 4 HOH A 25 2025 2025 HOH HOH . F 4 HOH A 26 2026 2026 HOH HOH . F 4 HOH A 27 2027 2027 HOH HOH . F 4 HOH A 28 2028 2028 HOH HOH . F 4 HOH A 29 2029 2029 HOH HOH . F 4 HOH A 30 2030 2030 HOH HOH . F 4 HOH A 31 2031 2031 HOH HOH . F 4 HOH A 32 2032 2032 HOH HOH . F 4 HOH A 33 2033 2033 HOH HOH . F 4 HOH A 34 2034 2034 HOH HOH . F 4 HOH A 35 2035 2035 HOH HOH . F 4 HOH A 36 2036 2036 HOH HOH . F 4 HOH A 37 2037 2037 HOH HOH . F 4 HOH A 38 2038 2038 HOH HOH . F 4 HOH A 39 2039 2039 HOH HOH . F 4 HOH A 40 2040 2040 HOH HOH . F 4 HOH A 41 2041 2041 HOH HOH . F 4 HOH A 42 2042 2042 HOH HOH . F 4 HOH A 43 2043 2043 HOH HOH . F 4 HOH A 44 2044 2044 HOH HOH . F 4 HOH A 45 2045 2045 HOH HOH . F 4 HOH A 46 2046 2046 HOH HOH . F 4 HOH A 47 2047 2047 HOH HOH . F 4 HOH A 48 2048 2048 HOH HOH . F 4 HOH A 49 2049 2049 HOH HOH . F 4 HOH A 50 2050 2050 HOH HOH . F 4 HOH A 51 2051 2051 HOH HOH . F 4 HOH A 52 2052 2052 HOH HOH . F 4 HOH A 53 2053 2053 HOH HOH . F 4 HOH A 54 2054 2054 HOH HOH . F 4 HOH A 55 2055 2055 HOH HOH . F 4 HOH A 56 2056 2056 HOH HOH . F 4 HOH A 57 2057 2057 HOH HOH . F 4 HOH A 58 2058 2058 HOH HOH . F 4 HOH A 59 2059 2059 HOH HOH . F 4 HOH A 60 2060 2060 HOH HOH . F 4 HOH A 61 2061 2061 HOH HOH . F 4 HOH A 62 2062 2062 HOH HOH . F 4 HOH A 63 2063 2063 HOH HOH . F 4 HOH A 64 2064 2064 HOH HOH . F 4 HOH A 65 2065 2065 HOH HOH . F 4 HOH A 66 2066 2066 HOH HOH . F 4 HOH A 67 2067 2067 HOH HOH . F 4 HOH A 68 2068 2068 HOH HOH . F 4 HOH A 69 2069 2069 HOH HOH . F 4 HOH A 70 2070 2070 HOH HOH . F 4 HOH A 71 2071 2071 HOH HOH . F 4 HOH A 72 2072 2072 HOH HOH . G 4 HOH B 1 2001 2001 HOH HOH . G 4 HOH B 2 2002 2002 HOH HOH . G 4 HOH B 3 2003 2003 HOH HOH . G 4 HOH B 4 2004 2004 HOH HOH . G 4 HOH B 5 2005 2005 HOH HOH . G 4 HOH B 6 2006 2006 HOH HOH . G 4 HOH B 7 2007 2007 HOH HOH . G 4 HOH B 8 2008 2008 HOH HOH . G 4 HOH B 9 2009 2009 HOH HOH . G 4 HOH B 10 2010 2010 HOH HOH . G 4 HOH B 11 2011 2011 HOH HOH . G 4 HOH B 12 2012 2012 HOH HOH . G 4 HOH B 13 2013 2013 HOH HOH . G 4 HOH B 14 2014 2014 HOH HOH . G 4 HOH B 15 2015 2015 HOH HOH . G 4 HOH B 16 2016 2016 HOH HOH . G 4 HOH B 17 2017 2017 HOH HOH . G 4 HOH B 18 2018 2018 HOH HOH . G 4 HOH B 19 2019 2019 HOH HOH . G 4 HOH B 20 2020 2020 HOH HOH . G 4 HOH B 21 2021 2021 HOH HOH . G 4 HOH B 22 2022 2022 HOH HOH . G 4 HOH B 23 2023 2023 HOH HOH . G 4 HOH B 24 2024 2024 HOH HOH . G 4 HOH B 25 2025 2025 HOH HOH . G 4 HOH B 26 2026 2026 HOH HOH . G 4 HOH B 27 2027 2027 HOH HOH . G 4 HOH B 28 2028 2028 HOH HOH . G 4 HOH B 29 2029 2029 HOH HOH . G 4 HOH B 30 2030 2030 HOH HOH . G 4 HOH B 31 2031 2031 HOH HOH . G 4 HOH B 32 2032 2032 HOH HOH . G 4 HOH B 33 2033 2033 HOH HOH . G 4 HOH B 34 2034 2034 HOH HOH . G 4 HOH B 35 2035 2035 HOH HOH . G 4 HOH B 36 2036 2036 HOH HOH . G 4 HOH B 37 2037 2037 HOH HOH . G 4 HOH B 38 2038 2038 HOH HOH . G 4 HOH B 39 2039 2039 HOH HOH . G 4 HOH B 40 2040 2040 HOH HOH . G 4 HOH B 41 2041 2041 HOH HOH . G 4 HOH B 42 2042 2042 HOH HOH . G 4 HOH B 43 2043 2043 HOH HOH . G 4 HOH B 44 2044 2044 HOH HOH . G 4 HOH B 45 2045 2045 HOH HOH . G 4 HOH B 46 2046 2046 HOH HOH . G 4 HOH B 47 2047 2047 HOH HOH . G 4 HOH B 48 2048 2048 HOH HOH . G 4 HOH B 49 2049 2049 HOH HOH . G 4 HOH B 50 2050 2050 HOH HOH . G 4 HOH B 51 2051 2051 HOH HOH . G 4 HOH B 52 2052 2052 HOH HOH . G 4 HOH B 53 2053 2053 HOH HOH . G 4 HOH B 54 2054 2054 HOH HOH . G 4 HOH B 55 2055 2055 HOH HOH . G 4 HOH B 56 2056 2056 HOH HOH . G 4 HOH B 57 2057 2057 HOH HOH . G 4 HOH B 58 2058 2058 HOH HOH . G 4 HOH B 59 2059 2059 HOH HOH . G 4 HOH B 60 2060 2060 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 NAD . . . C 2 7.105 -25.983 -10.458 1 44.72 ? PA NAD 1277 A 1 HETATM 2 O O1A NAD . . . C 2 7.663 -26.87 -9.401 1 45.42 ? O1A NAD 1277 A 1 HETATM 3 O O2A NAD . . . C 2 6.362 -26.633 -11.586 1 45.96 ? O2A NAD 1277 A 1 HETATM 4 O O5B NAD . . . C 2 8.283 -25.034 -10.978 1 41.6 ? O5B NAD 1277 A 1 HETATM 5 C C5B NAD . . . C 2 9.277 -24.569 -10.036 1 39.87 ? C5B NAD 1277 A 1 HETATM 6 C C4B NAD . . . C 2 10.694 -24.985 -10.448 1 39.88 ? C4B NAD 1277 A 1 HETATM 7 O O4B NAD . . . C 2 11.599 -24.647 -9.347 1 39.66 ? O4B NAD 1277 A 1 HETATM 8 C C3B NAD . . . C 2 10.905 -26.5 -10.716 1 38.65 ? C3B NAD 1277 A 1 HETATM 9 O O3B NAD . . . C 2 11.444 -26.777 -12.043 1 36.74 ? O3B NAD 1277 A 1 HETATM 10 C C2B NAD . . . C 2 11.955 -26.893 -9.692 1 36.23 ? C2B NAD 1277 A 1 HETATM 11 O O2B NAD . . . C 2 12.807 -27.877 -10.288 1 34.05 ? O2B NAD 1277 A 1 HETATM 12 C C1B NAD . . . C 2 12.696 -25.561 -9.465 1 37.71 ? C1B NAD 1277 A 1 HETATM 13 N N9A NAD . . . C 2 13.414 -25.553 -8.161 1 37.9 ? N9A NAD 1277 A 1 HETATM 14 C C8A NAD . . . C 2 12.84 -25.748 -6.954 1 38.05 ? C8A NAD 1277 A 1 HETATM 15 N N7A NAD . . . C 2 13.745 -25.705 -5.993 1 37.83 ? N7A NAD 1277 A 1 HETATM 16 C C5A NAD . . . C 2 14.912 -25.474 -6.568 1 38.85 ? C5A NAD 1277 A 1 HETATM 17 C C6A NAD . . . C 2 16.195 -25.333 -6.072 1 38.01 ? C6A NAD 1277 A 1 HETATM 18 N N6A NAD . . . C 2 16.438 -25.405 -4.768 0.6 38.12 ? N6A NAD 1277 A 1 HETATM 19 N N1A NAD . . . C 2 17.184 -25.097 -6.95 1 37.87 ? N1A NAD 1277 A 1 HETATM 20 C C2A NAD . . . C 2 16.965 -25.024 -8.251 1 38.41 ? C2A NAD 1277 A 1 HETATM 21 N N3A NAD . . . C 2 15.747 -25.161 -8.771 1 40.53 ? N3A NAD 1277 A 1 HETATM 22 C C4A NAD . . . C 2 14.705 -25.378 -7.953 1 38.59 ? C4A NAD 1277 A 1 HETATM 23 O O3 NAD . . . C 2 6.175 -24.871 -9.694 1 43.25 ? O3 NAD 1277 A 1 HETATM 24 P PN NAD . . . C 2 5.834 -23.403 -10.204 1 39.27 ? PN NAD 1277 A 1 HETATM 25 O O1N NAD . . . C 2 4.515 -23.087 -9.688 1 39.74 ? O1N NAD 1277 A 1 HETATM 26 O O2N NAD . . . C 2 6.148 -23.354 -11.666 1 41.66 ? O2N NAD 1277 A 1 HETATM 27 O O5D NAD . . . C 2 6.866 -22.46 -9.409 1 38.04 ? O5D NAD 1277 A 1 HETATM 28 C C5D NAD . . . C 2 7.329 -21.271 -9.991 1 35.38 ? C5D NAD 1277 A 1 HETATM 29 C C4D NAD . . . C 2 7.078 -20.067 -9.048 1 36.79 ? C4D NAD 1277 A 1 HETATM 30 O O4D NAD . . . C 2 5.664 -19.635 -9.077 1 35.18 ? O4D NAD 1277 A 1 HETATM 31 C C3D NAD . . . C 2 7.415 -20.196 -7.546 1 35.07 ? C3D NAD 1277 A 1 HETATM 32 O O3D NAD . . . C 2 8.07 -18.97 -7.172 1 36.02 ? O3D NAD 1277 A 1 HETATM 33 C C2D NAD . . . C 2 6.016 -20.319 -6.932 1 35.89 ? C2D NAD 1277 A 1 HETATM 34 O O2D NAD . . . C 2 5.897 -20.03 -5.538 1 36.86 ? O2D NAD 1277 A 1 HETATM 35 C C1D NAD . . . C 2 5.359 -19.229 -7.718 1 35.42 ? C1D NAD 1277 A 1 HETATM 36 N N1N NAD . . . C 2 3.923 -19.347 -7.683 1 36.1 ? N1N NAD 1277 A 1 HETATM 37 C C2N NAD . . . C 2 3.301 -20.616 -7.929 1 34.89 ? C2N NAD 1277 A 1 HETATM 38 C C3N NAD . . . C 2 1.894 -20.65 -7.91 1 37.82 ? C3N NAD 1277 A 1 HETATM 39 C C7N NAD . . . C 2 1.133 -21.954 -8.181 1 37.81 ? C7N NAD 1277 A 1 HETATM 40 O O7N NAD . . . C 2 -0.051 -22.09 -7.818 1 39.87 ? O7N NAD 1277 A 1 HETATM 41 N N7N NAD . . . C 2 1.848 -22.882 -8.855 1 37.79 ? N7N NAD 1277 A 1 HETATM 42 C C4N NAD . . . C 2 1.16 -19.473 -7.661 1 34.56 ? C4N NAD 1277 A 1 HETATM 43 C C5N NAD . . . C 2 1.794 -18.253 -7.424 1 33.97 ? C5N NAD 1277 A 1 HETATM 44 C C6N NAD . . . C 2 3.18 -18.167 -7.432 1 34.19 ? C6N NAD 1277 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 44 #