data_3PRJ # _model_server_result.job_id 9lTERBeL2lHasyexlcDrZA _model_server_result.datetime_utc '2025-07-20 21:34:25' _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 3prj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":500}' # _entry.id 3PRJ # _exptl.entry_id 3PRJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 665.441 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _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 90 _cell.angle_gamma 90 _cell.entry_id 3PRJ _cell.length_a 111.79 _cell.length_b 160.64 _cell.length_c 205.86 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PRJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,M,N,O,P,Q,R,S,T,U,V,W,X _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q N N # _chem_comp.formula 'C21 H29 N7 O14 P2' _chem_comp.formula_weight 665.441 _chem_comp.id NAI _chem_comp.mon_nstd_flag . _chem_comp.name '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms NADH # 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 NAI doub 237 n n PA O2A NAI sing 238 n n PA O5B NAI sing 239 n n PA O3 NAI sing 240 n n O2A HOA2 NAI sing 241 n n O5B C5B NAI sing 242 n n C5B C4B NAI sing 243 n n C5B H51A NAI sing 244 n n C5B H52A NAI sing 245 n n C4B O4B NAI sing 246 n n C4B C3B NAI sing 247 n n C4B H4B NAI sing 248 n n O4B C1B NAI sing 249 n n C3B O3B NAI sing 250 n n C3B C2B NAI sing 251 n n C3B H3B NAI sing 252 n n O3B HO3A NAI sing 253 n n C2B O2B NAI sing 254 n n C2B C1B NAI sing 255 n n C2B H2B NAI sing 256 n n O2B HO2A NAI sing 257 n n C1B N9A NAI sing 258 n n C1B H1B NAI sing 259 n n N9A C8A NAI sing 260 n y N9A C4A NAI sing 261 n y C8A N7A NAI doub 262 n y C8A H8A NAI sing 263 n n N7A C5A NAI sing 264 n y C5A C6A NAI sing 265 n y C5A C4A NAI doub 266 n y C6A N6A NAI sing 267 n n C6A N1A NAI doub 268 n y N6A H61A NAI sing 269 n n N6A H62A NAI sing 270 n n N1A C2A NAI sing 271 n y C2A N3A NAI doub 272 n y C2A H2A NAI sing 273 n n N3A C4A NAI sing 274 n y O3 PN NAI sing 275 n n PN O1N NAI sing 276 n n PN O2N NAI doub 277 n n PN O5D NAI sing 278 n n O1N HO1N NAI sing 279 n n O5D C5D NAI sing 280 n n C5D C4D NAI sing 281 n n C5D H51N NAI sing 282 n n C5D H52N NAI sing 283 n n C4D O4D NAI sing 284 n n C4D C3D NAI sing 285 n n C4D H4D NAI sing 286 n n O4D C1D NAI sing 287 n n C3D O3D NAI sing 288 n n C3D C2D NAI sing 289 n n C3D H3D NAI sing 290 n n O3D HO3N NAI sing 291 n n C2D O2D NAI sing 292 n n C2D C1D NAI sing 293 n n C2D H2D NAI sing 294 n n O2D HO2N NAI sing 295 n n C1D N1N NAI sing 296 n n C1D H1D NAI sing 297 n n N1N C2N NAI sing 298 n n N1N C6N NAI sing 299 n n C2N C3N NAI doub 300 n n C2N H2N NAI sing 301 n n C3N C7N NAI sing 302 n n C3N C4N NAI sing 303 n n C7N O7N NAI doub 304 n n C7N N7N NAI sing 305 n n N7N H71N NAI sing 306 n n N7N H72N NAI sing 307 n n C4N C5N NAI sing 308 n n C4N H4N NAI sing 309 n n C4N H42N NAI sing 310 n n C5N C6N NAI doub 311 n n C5N H5N NAI sing 312 n n C6N H6N NAI sing 313 n n # _atom_sites.entry_id 3PRJ _atom_sites.fract_transf_matrix[1][1] 0.008945 _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] 0.006225 _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] 0.004858 _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 2 NAI A 1 500 500 NAI NAI . H 3 UDX A 1 501 501 UDX UDX . I 2 NAI B 1 500 500 NAI NAI . J 3 UDX B 1 501 501 UDX UDX . K 2 NAI C 1 500 500 NAI NAI . L 3 UDX C 1 501 501 UDX UDX . M 2 NAI D 1 500 500 NAI NAI . N 3 UDX D 1 501 501 UDX UDX . O 2 NAI E 1 500 500 NAI NAI . P 3 UDX E 1 501 501 UDX UDX . Q 2 NAI F 1 500 500 NAI NAI . R 3 UDX F 1 501 501 UDX UDX . S 4 HOH A 1 495 495 HOH HOH . S 4 HOH A 2 496 496 HOH HOH . S 4 HOH A 3 497 497 HOH HOH . S 4 HOH A 4 498 498 HOH HOH . S 4 HOH A 5 499 499 HOH HOH . S 4 HOH A 6 502 502 HOH HOH . S 4 HOH A 7 503 503 HOH HOH . S 4 HOH A 8 504 504 HOH HOH . S 4 HOH A 9 505 505 HOH HOH . S 4 HOH A 10 506 506 HOH HOH . S 4 HOH A 11 507 507 HOH HOH . S 4 HOH A 12 508 508 HOH HOH . S 4 HOH A 13 509 509 HOH HOH . S 4 HOH A 14 510 510 HOH HOH . S 4 HOH A 15 511 511 HOH HOH . S 4 HOH A 16 512 512 HOH HOH . S 4 HOH A 17 513 513 HOH HOH . S 4 HOH A 18 514 514 HOH HOH . S 4 HOH A 19 515 515 HOH HOH . S 4 HOH A 20 516 516 HOH HOH . S 4 HOH A 21 517 517 HOH HOH . S 4 HOH A 22 518 518 HOH HOH . S 4 HOH A 23 519 519 HOH HOH . S 4 HOH A 24 520 520 HOH HOH . S 4 HOH A 25 521 521 HOH HOH . S 4 HOH A 26 522 522 HOH HOH . S 4 HOH A 27 523 523 HOH HOH . S 4 HOH A 28 524 524 HOH HOH . S 4 HOH A 29 525 525 HOH HOH . S 4 HOH A 30 526 526 HOH HOH . S 4 HOH A 31 527 527 HOH HOH . S 4 HOH A 32 528 528 HOH HOH . S 4 HOH A 33 529 529 HOH HOH . S 4 HOH A 34 530 530 HOH HOH . S 4 HOH A 35 531 531 HOH HOH . S 4 HOH A 36 532 532 HOH HOH . T 4 HOH B 1 495 495 HOH HOH . T 4 HOH B 2 496 496 HOH HOH . T 4 HOH B 3 497 497 HOH HOH . T 4 HOH B 4 498 498 HOH HOH . T 4 HOH B 5 499 499 HOH HOH . T 4 HOH B 6 502 502 HOH HOH . T 4 HOH B 7 503 503 HOH HOH . T 4 HOH B 8 504 504 HOH HOH . T 4 HOH B 9 505 505 HOH HOH . T 4 HOH B 10 506 506 HOH HOH . T 4 HOH B 11 507 507 HOH HOH . T 4 HOH B 12 508 508 HOH HOH . T 4 HOH B 13 509 509 HOH HOH . T 4 HOH B 14 510 510 HOH HOH . T 4 HOH B 15 511 511 HOH HOH . T 4 HOH B 16 512 512 HOH HOH . T 4 HOH B 17 513 513 HOH HOH . T 4 HOH B 18 514 514 HOH HOH . T 4 HOH B 19 515 515 HOH HOH . T 4 HOH B 20 516 516 HOH HOH . T 4 HOH B 21 517 517 HOH HOH . T 4 HOH B 22 518 518 HOH HOH . T 4 HOH B 23 519 519 HOH HOH . T 4 HOH B 24 520 520 HOH HOH . T 4 HOH B 25 521 521 HOH HOH . T 4 HOH B 26 522 522 HOH HOH . T 4 HOH B 27 523 523 HOH HOH . T 4 HOH B 28 524 524 HOH HOH . T 4 HOH B 29 525 525 HOH HOH . T 4 HOH B 30 526 526 HOH HOH . T 4 HOH B 31 527 527 HOH HOH . T 4 HOH B 32 528 528 HOH HOH . U 4 HOH C 1 495 495 HOH HOH . U 4 HOH C 2 496 496 HOH HOH . U 4 HOH C 3 497 497 HOH HOH . U 4 HOH C 4 498 498 HOH HOH . U 4 HOH C 5 499 499 HOH HOH . U 4 HOH C 6 502 502 HOH HOH . U 4 HOH C 7 503 503 HOH HOH . U 4 HOH C 8 504 504 HOH HOH . U 4 HOH C 9 505 505 HOH HOH . U 4 HOH C 10 506 506 HOH HOH . U 4 HOH C 11 507 507 HOH HOH . U 4 HOH C 12 508 508 HOH HOH . U 4 HOH C 13 509 509 HOH HOH . V 4 HOH D 1 495 495 HOH HOH . V 4 HOH D 2 496 496 HOH HOH . V 4 HOH D 3 497 497 HOH HOH . V 4 HOH D 4 498 498 HOH HOH . V 4 HOH D 5 499 499 HOH HOH . V 4 HOH D 6 502 502 HOH HOH . V 4 HOH D 7 503 503 HOH HOH . V 4 HOH D 8 504 504 HOH HOH . V 4 HOH D 9 505 505 HOH HOH . V 4 HOH D 10 506 506 HOH HOH . V 4 HOH D 11 507 507 HOH HOH . V 4 HOH D 12 508 508 HOH HOH . V 4 HOH D 13 509 509 HOH HOH . V 4 HOH D 14 510 510 HOH HOH . V 4 HOH D 15 511 511 HOH HOH . V 4 HOH D 16 512 512 HOH HOH . V 4 HOH D 17 513 513 HOH HOH . V 4 HOH D 18 514 514 HOH HOH . V 4 HOH D 19 515 515 HOH HOH . V 4 HOH D 20 516 516 HOH HOH . V 4 HOH D 21 517 517 HOH HOH . V 4 HOH D 22 518 518 HOH HOH . V 4 HOH D 23 519 519 HOH HOH . W 4 HOH E 1 495 495 HOH HOH . W 4 HOH E 2 496 496 HOH HOH . W 4 HOH E 3 497 497 HOH HOH . W 4 HOH E 4 498 498 HOH HOH . W 4 HOH E 5 499 499 HOH HOH . W 4 HOH E 6 502 502 HOH HOH . W 4 HOH E 7 503 503 HOH HOH . W 4 HOH E 8 504 504 HOH HOH . W 4 HOH E 9 505 505 HOH HOH . W 4 HOH E 10 506 506 HOH HOH . W 4 HOH E 11 507 507 HOH HOH . W 4 HOH E 12 508 508 HOH HOH . W 4 HOH E 13 509 509 HOH HOH . W 4 HOH E 14 510 510 HOH HOH . W 4 HOH E 15 511 511 HOH HOH . W 4 HOH E 16 512 512 HOH HOH . W 4 HOH E 17 513 513 HOH HOH . W 4 HOH E 18 514 514 HOH HOH . W 4 HOH E 19 515 515 HOH HOH . W 4 HOH E 20 516 516 HOH HOH . W 4 HOH E 21 517 517 HOH HOH . W 4 HOH E 22 518 518 HOH HOH . W 4 HOH E 23 519 519 HOH HOH . W 4 HOH E 24 520 520 HOH HOH . W 4 HOH E 25 521 521 HOH HOH . W 4 HOH E 26 522 522 HOH HOH . W 4 HOH E 27 523 523 HOH HOH . W 4 HOH E 28 524 524 HOH HOH . X 4 HOH F 1 495 495 HOH HOH . X 4 HOH F 2 496 496 HOH HOH . X 4 HOH F 3 497 497 HOH HOH . X 4 HOH F 4 498 498 HOH HOH . X 4 HOH F 5 499 499 HOH HOH . X 4 HOH F 6 502 502 HOH HOH . X 4 HOH F 7 503 503 HOH HOH . X 4 HOH F 8 504 504 HOH HOH . X 4 HOH F 9 505 505 HOH HOH . X 4 HOH F 10 506 506 HOH HOH . X 4 HOH F 11 507 507 HOH HOH . X 4 HOH F 12 508 508 HOH HOH . X 4 HOH F 13 509 509 HOH HOH . X 4 HOH F 14 510 510 HOH HOH . X 4 HOH F 15 511 511 HOH HOH . X 4 HOH F 16 512 512 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 NAI . . . K 2 32.362 4.43 84.527 1 53.44 ? PA NAI 500 C 1 HETATM 2 O O1A NAI . . . K 2 31.697 4.076 83.244 1 53.51 ? O1A NAI 500 C 1 HETATM 3 O O2A NAI . . . K 2 34.011 4.21 84.577 1 50.59 ? O2A NAI 500 C 1 HETATM 4 O O5B NAI . . . K 2 31.79 3.617 85.768 1 51.54 ? O5B NAI 500 C 1 HETATM 5 C C5B NAI . . . K 2 30.452 3.862 86.205 1 49.62 ? C5B NAI 500 C 1 HETATM 6 C C4B NAI . . . K 2 29.903 2.589 86.798 1 49.03 ? C4B NAI 500 C 1 HETATM 7 O O4B NAI . . . K 2 28.483 2.635 86.701 1 48.98 ? O4B NAI 500 C 1 HETATM 8 C C3B NAI . . . K 2 30.331 1.456 85.861 1 48.48 ? C3B NAI 500 C 1 HETATM 9 O O3B NAI . . . K 2 31.294 0.587 86.501 1 46.39 ? O3B NAI 500 C 1 HETATM 10 C C2B NAI . . . K 2 28.995 0.776 85.51 1 48.21 ? C2B NAI 500 C 1 HETATM 11 O O2B NAI . . . K 2 29.122 -0.636 85.521 1 47.45 ? O2B NAI 500 C 1 HETATM 12 C C1B NAI . . . K 2 28.097 1.254 86.639 1 49.5 ? C1B NAI 500 C 1 HETATM 13 N N9A NAI . . . K 2 26.593 1.321 86.462 1 51.4 ? N9A NAI 500 C 1 HETATM 14 C C8A NAI . . . K 2 25.928 1.941 85.481 1 51.54 ? C8A NAI 500 C 1 HETATM 15 N N7A NAI . . . K 2 24.608 1.816 85.671 1 52.09 ? N7A NAI 500 C 1 HETATM 16 C C5A NAI . . . K 2 24.409 1.112 86.786 1 52.72 ? C5A NAI 500 C 1 HETATM 17 C C6A NAI . . . K 2 23.265 0.674 87.486 1 52.48 ? C6A NAI 500 C 1 HETATM 18 N N6A NAI . . . K 2 22.022 0.933 87.077 1 50.79 ? N6A NAI 500 C 1 HETATM 19 N N1A NAI . . . K 2 23.442 -0.033 88.617 1 52.97 ? N1A NAI 500 C 1 HETATM 20 C C2A NAI . . . K 2 24.675 -0.32 89.069 1 53.39 ? C2A NAI 500 C 1 HETATM 21 N N3A NAI . . . K 2 25.778 0.077 88.435 1 53.31 ? N3A NAI 500 C 1 HETATM 22 C C4A NAI . . . K 2 25.678 0.798 87.291 1 52.55 ? C4A NAI 500 C 1 HETATM 23 O O3 NAI . . . K 2 31.981 5.981 84.767 1 56.19 ? O3 NAI 500 C 1 HETATM 24 P PN NAI . . . K 2 33.023 6.986 85.421 1 61.04 ? PN NAI 500 C 1 HETATM 25 O O1N NAI . . . K 2 33.881 7.604 84.231 1 60.01 ? O1N NAI 500 C 1 HETATM 26 O O2N NAI . . . K 2 33.906 6.342 86.44 1 60.42 ? O2N NAI 500 C 1 HETATM 27 O O5D NAI . . . K 2 32.184 8.26 85.989 1 64.36 ? O5D NAI 500 C 1 HETATM 28 C C5D NAI . . . K 2 31.103 8.783 85.263 1 69.66 ? C5D NAI 500 C 1 HETATM 29 C C4D NAI . . . K 2 31.406 10.208 84.744 1 74.87 ? C4D NAI 500 C 1 HETATM 30 O O4D NAI . . . K 2 31.817 10.346 83.324 1 78.19 ? O4D NAI 500 C 1 HETATM 31 C C3D NAI . . . K 2 30.078 10.937 84.763 1 76.79 ? C3D NAI 500 C 1 HETATM 32 O O3D NAI . . . K 2 30.364 12.329 84.648 1 76.31 ? O3D NAI 500 C 1 HETATM 33 C C2D NAI . . . K 2 29.394 10.404 83.486 1 78.5 ? C2D NAI 500 C 1 HETATM 34 O O2D NAI . . . K 2 28.274 11.198 83.116 1 77.26 ? O2D NAI 500 C 1 HETATM 35 C C1D NAI . . . K 2 30.539 10.488 82.443 1 80.77 ? C1D NAI 500 C 1 HETATM 36 N N1N NAI . . . K 2 30.425 9.718 81.09 1 84.22 ? N1N NAI 500 C 1 HETATM 37 C C2N NAI . . . K 2 30.722 8.322 80.874 1 85.76 ? C2N NAI 500 C 1 HETATM 38 C C3N NAI . . . K 2 30.648 7.714 79.597 1 86.2 ? C3N NAI 500 C 1 HETATM 39 C C7N NAI . . . K 2 30.975 6.215 79.351 1 86.59 ? C7N NAI 500 C 1 HETATM 40 O O7N NAI . . . K 2 30.887 5.724 78.218 1 86.62 ? O7N NAI 500 C 1 HETATM 41 N N7N NAI . . . K 2 31.332 5.517 80.432 1 85.97 ? N7N NAI 500 C 1 HETATM 42 C C4N NAI . . . K 2 30.245 8.538 78.366 1 86.46 ? C4N NAI 500 C 1 HETATM 43 C C5N NAI . . . K 2 29.998 9.88 78.663 1 86 ? C5N NAI 500 C 1 HETATM 44 C C6N NAI . . . K 2 30.094 10.45 79.939 1 85 ? C6N NAI 500 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 44 #