data_6DZS # _model_server_result.job_id 3vTMOYmAoE5PvV34D6j6aQ _model_server_result.datetime_utc '2025-01-02 20:59:44' _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 6dzs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":500}' # _entry.id 6DZS # _exptl.entry_id 6DZS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.83 _cell.angle_gamma 90 _cell.entry_id 6DZS _cell.length_a 93.8 _cell.length_b 110.32 _cell.length_c 97.53 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DZS _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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,E,F,I,J 1 1 C,D,G,H,K,L 2 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N 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 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 6DZS _atom_sites.fract_transf_matrix[1][1] 0.010661 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00034 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009065 _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] 0.010258 _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 E 2 NAP A 1 500 500 NAP NAP . F 2 NAP B 1 500 500 NAP NAP . G 2 NAP C 1 500 500 NAP NAP . H 2 NAP D 1 500 500 NAP NAP . I 3 HOH A 1 601 90 HOH HOH . I 3 HOH A 2 602 25 HOH HOH . I 3 HOH A 3 603 45 HOH HOH . I 3 HOH A 4 604 31 HOH HOH . I 3 HOH A 5 605 54 HOH HOH . I 3 HOH A 6 606 11 HOH HOH . I 3 HOH A 7 607 36 HOH HOH . I 3 HOH A 8 608 55 HOH HOH . I 3 HOH A 9 609 86 HOH HOH . I 3 HOH A 10 610 3 HOH HOH . I 3 HOH A 11 611 41 HOH HOH . I 3 HOH A 12 612 66 HOH HOH . I 3 HOH A 13 613 67 HOH HOH . I 3 HOH A 14 614 69 HOH HOH . I 3 HOH A 15 615 70 HOH HOH . I 3 HOH A 16 616 94 HOH HOH . I 3 HOH A 17 617 71 HOH HOH . I 3 HOH A 18 618 32 HOH HOH . I 3 HOH A 19 619 65 HOH HOH . J 3 HOH B 1 601 95 HOH HOH . J 3 HOH B 2 602 13 HOH HOH . J 3 HOH B 3 603 37 HOH HOH . J 3 HOH B 4 604 72 HOH HOH . J 3 HOH B 5 605 10 HOH HOH . J 3 HOH B 6 606 93 HOH HOH . J 3 HOH B 7 607 44 HOH HOH . K 3 HOH C 1 601 91 HOH HOH . K 3 HOH C 2 602 75 HOH HOH . K 3 HOH C 3 603 78 HOH HOH . K 3 HOH C 4 604 15 HOH HOH . K 3 HOH C 5 605 21 HOH HOH . K 3 HOH C 6 606 76 HOH HOH . K 3 HOH C 7 607 29 HOH HOH . K 3 HOH C 8 608 77 HOH HOH . K 3 HOH C 9 609 74 HOH HOH . L 3 HOH D 1 601 23 HOH HOH . L 3 HOH D 2 602 81 HOH HOH . L 3 HOH D 3 603 28 HOH HOH . L 3 HOH D 4 604 83 HOH HOH . L 3 HOH D 5 605 82 HOH HOH . L 3 HOH D 6 606 80 HOH HOH . L 3 HOH D 7 607 84 HOH HOH . L 3 HOH D 8 608 88 HOH HOH . L 3 HOH D 9 609 87 HOH HOH . L 3 HOH D 10 610 79 HOH HOH . L 3 HOH D 11 611 92 HOH HOH . L 3 HOH D 12 612 9 HOH HOH . L 3 HOH D 13 613 89 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 . . . E 2 3.637 -31.27 -9.557 1 48.08 ? PA NAP 500 A 1 HETATM 2 O O1A NAP . . . E 2 3.807 -31.346 -11.025 1 47.43 ? O1A NAP 500 A 1 HETATM 3 O O2A NAP . . . E 2 2.38 -32.027 -9.152 1 48.09 ? O2A NAP 500 A 1 HETATM 4 O O5B NAP . . . E 2 4.931 -31.841 -8.726 1 48.19 ? O5B NAP 500 A 1 HETATM 5 C C5B NAP . . . E 2 4.948 -31.787 -7.289 1 50.29 ? C5B NAP 500 A 1 HETATM 6 C C4B NAP . . . E 2 6.28 -32.317 -6.816 1 51.48 ? C4B NAP 500 A 1 HETATM 7 O O4B NAP . . . E 2 6.311 -32.313 -5.371 1 52.57 ? O4B NAP 500 A 1 HETATM 8 C C3B NAP . . . E 2 6.596 -33.748 -7.252 1 52.16 ? C3B NAP 500 A 1 HETATM 9 O O3B NAP . . . E 2 7.979 -33.886 -7.566 1 51.69 ? O3B NAP 500 A 1 HETATM 10 C C2B NAP . . . E 2 6.229 -34.574 -6.022 1 53.39 ? C2B NAP 500 A 1 HETATM 11 O O2B NAP . . . E 2 6.981 -35.803 -5.957 1 54.72 ? O2B NAP 500 A 1 HETATM 12 C C1B NAP . . . E 2 6.537 -33.619 -4.874 1 52.49 ? C1B NAP 500 A 1 HETATM 13 N N9A NAP . . . E 2 5.705 -33.807 -3.691 1 50.97 ? N9A NAP 500 A 1 HETATM 14 C C8A NAP . . . E 2 4.342 -33.677 -3.605 1 50.94 ? C8A NAP 500 A 1 HETATM 15 N N7A NAP . . . E 2 3.86 -33.884 -2.405 1 51.18 ? N7A NAP 500 A 1 HETATM 16 C C5A NAP . . . E 2 4.983 -34.174 -1.642 1 50.81 ? C5A NAP 500 A 1 HETATM 17 C C6A NAP . . . E 2 5.15 -34.494 -0.286 1 51.7 ? C6A NAP 500 A 1 HETATM 18 N N6A NAP . . . E 2 4.147 -34.568 0.589 1 53.23 ? N6A NAP 500 A 1 HETATM 19 N N1A NAP . . . E 2 6.405 -34.739 0.151 1 51.48 ? N1A NAP 500 A 1 HETATM 20 C C2A NAP . . . E 2 7.414 -34.666 -0.722 1 51.06 ? C2A NAP 500 A 1 HETATM 21 N N3A NAP . . . E 2 7.379 -34.369 -2.023 1 51.27 ? N3A NAP 500 A 1 HETATM 22 C C4A NAP . . . E 2 6.124 -34.131 -2.427 1 50.6 ? C4A NAP 500 A 1 HETATM 23 O O3 NAP . . . E 2 3.459 -29.751 -9.111 1 49.66 ? O3 NAP 500 A 1 HETATM 24 P PN NAP . . . E 2 3.942 -28.394 -9.802 1 48.31 ? PN NAP 500 A 1 HETATM 25 O O1N NAP . . . E 2 3.132 -28.173 -11.018 1 48.46 ? O1N NAP 500 A 1 HETATM 26 O O2N NAP . . . E 2 5.417 -28.428 -9.921 1 50.4 ? O2N NAP 500 A 1 HETATM 27 O O5D NAP . . . E 2 3.499 -27.335 -8.697 1 49.89 ? O5D NAP 500 A 1 HETATM 28 C C5D NAP . . . E 2 4.379 -27.049 -7.587 1 50.79 ? C5D NAP 500 A 1 HETATM 29 C C4D NAP . . . E 2 3.869 -25.825 -6.873 1 51.29 ? C4D NAP 500 A 1 HETATM 30 O O4D NAP . . . E 2 3.938 -24.69 -7.766 1 51.93 ? O4D NAP 500 A 1 HETATM 31 C C3D NAP . . . E 2 2.421 -25.909 -6.381 1 50.67 ? C3D NAP 500 A 1 HETATM 32 O O3D NAP . . . E 2 2.296 -25.337 -5.083 1 50.37 ? O3D NAP 500 A 1 HETATM 33 C C2D NAP . . . E 2 1.659 -25.078 -7.412 1 52.06 ? C2D NAP 500 A 1 HETATM 34 O O2D NAP . . . E 2 0.505 -24.467 -6.848 1 53.6 ? O2D NAP 500 A 1 HETATM 35 C C1D NAP . . . E 2 2.706 -24.026 -7.756 1 52.78 ? C1D NAP 500 A 1 HETATM 36 N N1N NAP . . . E 2 2.509 -23.347 -9.115 1 55.11 ? N1N NAP 500 A 1 HETATM 37 C C2N NAP . . . E 2 2.537 -24.128 -10.209 1 56.17 ? C2N NAP 500 A 1 HETATM 38 C C3N NAP . . . E 2 2.317 -23.585 -11.461 1 57.7 ? C3N NAP 500 A 1 HETATM 39 C C7N NAP . . . E 2 2.287 -24.429 -12.697 1 58.59 ? C7N NAP 500 A 1 HETATM 40 O O7N NAP . . . E 2 2.077 -23.894 -13.792 1 59.28 ? O7N NAP 500 A 1 HETATM 41 N N7N NAP . . . E 2 2.475 -25.722 -12.57 1 59.58 ? N7N NAP 500 A 1 HETATM 42 C C4N NAP . . . E 2 2.086 -22.22 -11.562 1 58.27 ? C4N NAP 500 A 1 HETATM 43 C C5N NAP . . . E 2 2.072 -21.436 -10.425 1 57.86 ? C5N NAP 500 A 1 HETATM 44 C C6N NAP . . . E 2 2.286 -22.02 -9.199 1 56.63 ? C6N NAP 500 A 1 HETATM 45 P P2B NAP . . . E 2 6.548 -37.06 -6.858 1 54.98 ? P2B NAP 500 A 1 HETATM 46 O O1X NAP . . . E 2 6.709 -36.755 -8.304 1 55.3 ? O1X NAP 500 A 1 HETATM 47 O O2X NAP . . . E 2 7.439 -38.204 -6.406 1 55.11 ? O2X NAP 500 A 1 HETATM 48 O O3X NAP . . . E 2 5.099 -37.354 -6.479 1 55.19 ? O3X NAP 500 A 1 HETATM 49 H H51A NAP . . . E 2 4.121 -32.37 -6.884 1 60.35 ? H51A NAP 500 A 1 HETATM 50 H H52A NAP . . . E 2 4.784 -30.765 -6.952 1 60.35 ? H52A NAP 500 A 1 HETATM 51 H H4B NAP . . . E 2 7.093 -31.638 -7.067 1 61.78 ? H4B NAP 500 A 1 HETATM 52 H H3B NAP . . . E 2 6.001 -34.002 -8.128 1 62.59 ? H3B NAP 500 A 1 HETATM 53 H HO3A NAP . . . E 2 8.271 -34.768 -7.216 1 62.02 ? HO3A NAP 500 A 1 HETATM 54 H H2B NAP . . . E 2 5.163 -34.796 -6.06 1 64.07 ? H2B NAP 500 A 1 HETATM 55 H H1B NAP . . . E 2 7.575 -33.691 -4.552 1 62.99 ? H1B NAP 500 A 1 HETATM 56 H H8A NAP . . . E 2 3.721 -33.423 -4.463 1 61.13 ? H8A NAP 500 A 1 HETATM 57 H H61A NAP . . . E 2 3.194 -34.389 0.288 1 63.88 ? H61A NAP 500 A 1 HETATM 58 H H62A NAP . . . E 2 4.333 -34.804 1.558 1 63.88 ? H62A NAP 500 A 1 HETATM 59 H H2A NAP . . . E 2 8.396 -34.88 -0.302 1 61.27 ? H2A NAP 500 A 1 HETATM 60 H H51N NAP . . . E 2 5.397 -26.876 -7.935 1 60.94 ? H51N NAP 500 A 1 HETATM 61 H H52N NAP . . . E 2 4.417 -27.89 -6.897 1 60.94 ? H52N NAP 500 A 1 HETATM 62 H H4D NAP . . . E 2 4.539 -25.539 -6.064 1 61.55 ? H4D NAP 500 A 1 HETATM 63 H H3D NAP . . . E 2 2.044 -26.93 -6.354 1 60.81 ? H3D NAP 500 A 1 HETATM 64 H HO3N NAP . . . E 2 1.497 -24.747 -5.098 1 60.44 ? HO3N NAP 500 A 1 HETATM 65 H H2D NAP . . . E 2 1.303 -25.653 -8.265 1 62.48 ? H2D NAP 500 A 1 HETATM 66 H HO2N NAP . . . E 2 -0.335 -24.897 -7.156 1 64.32 ? HO2N NAP 500 A 1 HETATM 67 H H1D NAP . . . E 2 2.75 -23.195 -7.053 1 63.34 ? H1D NAP 500 A 1 HETATM 68 H H2N NAP . . . E 2 2.735 -25.192 -10.089 1 67.4 ? H2N NAP 500 A 1 HETATM 69 H H71N NAP . . . E 2 2.635 -26.111 -11.646 1 71.49 ? H71N NAP 500 A 1 HETATM 70 H H72N NAP . . . E 2 2.457 -26.308 -13.398 1 71.49 ? H72N NAP 500 A 1 HETATM 71 H H4N NAP . . . E 2 1.913 -21.736 -12.522 1 69.92 ? H4N NAP 500 A 1 HETATM 72 H H5N NAP . . . E 2 1.893 -20.364 -10.495 1 69.43 ? H5N NAP 500 A 1 HETATM 73 H H6N NAP . . . E 2 2.279 -21.425 -8.288 1 67.96 ? H6N NAP 500 A 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 73 #