data_2GSD # _model_server_result.job_id rCfvLYKRodtNWaIB4IcSBw _model_server_result.datetime_utc '2025-02-26 23:13:52' _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 2gsd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 2GSD # _exptl.entry_id 2GSD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 103.57 _cell.angle_gamma 90 _cell.entry_id 2GSD _cell.length_a 80.45 _cell.length_b 66.5 _cell.length_c 75.55 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2GSD _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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' 2_756 -x+2,y,-z+1 -1 0 0 0 1 0 0 0 -1 143.173465 0 73.440945 # _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 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 239 n n PA O2A NAD sing 240 n n PA O5B NAD sing 241 n n PA O3 NAD sing 242 n n O2A HOA2 NAD sing 243 n n O5B C5B NAD sing 244 n n C5B C4B NAD sing 245 n n C5B H51A NAD sing 246 n n C5B H52A NAD sing 247 n n C4B O4B NAD sing 248 n n C4B C3B NAD sing 249 n n C4B H4B NAD sing 250 n n O4B C1B NAD sing 251 n n C3B O3B NAD sing 252 n n C3B C2B NAD sing 253 n n C3B H3B NAD sing 254 n n O3B HO3A NAD sing 255 n n C2B O2B NAD sing 256 n n C2B C1B NAD sing 257 n n C2B H2B NAD sing 258 n n O2B HO2A NAD sing 259 n n C1B N9A NAD sing 260 n n C1B H1B NAD sing 261 n n N9A C8A NAD sing 262 n y N9A C4A NAD sing 263 n y C8A N7A NAD doub 264 n y C8A H8A NAD sing 265 n n N7A C5A NAD sing 266 n y C5A C6A NAD sing 267 n y C5A C4A NAD doub 268 n y C6A N6A NAD sing 269 n n C6A N1A NAD doub 270 n y N6A H61A NAD sing 271 n n N6A H62A NAD sing 272 n n N1A C2A NAD sing 273 n y C2A N3A NAD doub 274 n y C2A H2A NAD sing 275 n n N3A C4A NAD sing 276 n y O3 PN NAD sing 277 n n PN O1N NAD doub 278 n n PN O2N NAD sing 279 n n PN O5D NAD sing 280 n n O5D C5D NAD sing 281 n n C5D C4D NAD sing 282 n n C5D H51N NAD sing 283 n n C5D H52N NAD sing 284 n n C4D O4D NAD sing 285 n n C4D C3D NAD sing 286 n n C4D H4D NAD sing 287 n n O4D C1D NAD sing 288 n n C3D O3D NAD sing 289 n n C3D C2D NAD sing 290 n n C3D H3D NAD sing 291 n n O3D HO3N NAD sing 292 n n C2D O2D NAD sing 293 n n C2D C1D NAD sing 294 n n C2D H2D NAD sing 295 n n O2D HO2N NAD sing 296 n n C1D N1N NAD sing 297 n n C1D H1D NAD sing 298 n n N1N C2N NAD sing 299 n y N1N C6N NAD doub 300 n y C2N C3N NAD doub 301 n y C2N H2N NAD sing 302 n n C3N C7N NAD sing 303 n n C3N C4N NAD sing 304 n y C7N O7N NAD doub 305 n n C7N N7N NAD sing 306 n n N7N H71N NAD sing 307 n n N7N H72N NAD sing 308 n n C4N C5N NAD doub 309 n y C4N H4N NAD sing 310 n n C5N C6N NAD sing 311 n y C5N H5N NAD sing 312 n n C6N H6N NAD sing 313 n n # _atom_sites.entry_id 2GSD _atom_sites.fract_transf_matrix[1][1] 0.01243 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002999 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015038 _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] 0.013616 _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 AZI A 1 403 403 AZI AZI . C 3 NAD A 1 402 402 NAD NAD . D 4 HOH A 1 404 1 HOH HOH . D 4 HOH A 2 405 2 HOH HOH . D 4 HOH A 3 406 3 HOH HOH . D 4 HOH A 4 407 4 HOH HOH . D 4 HOH A 5 408 5 HOH HOH . D 4 HOH A 6 409 6 HOH HOH . D 4 HOH A 7 410 7 HOH HOH . D 4 HOH A 8 411 8 HOH HOH . D 4 HOH A 9 412 9 HOH HOH . D 4 HOH A 10 413 10 HOH HOH . D 4 HOH A 11 414 11 HOH HOH . D 4 HOH A 12 415 12 HOH HOH . D 4 HOH A 13 416 13 HOH HOH . D 4 HOH A 14 417 14 HOH HOH . D 4 HOH A 15 418 15 HOH HOH . D 4 HOH A 16 419 16 HOH HOH . D 4 HOH A 17 420 17 HOH HOH . D 4 HOH A 18 421 18 HOH HOH . D 4 HOH A 19 422 19 HOH HOH . D 4 HOH A 20 423 20 HOH HOH . D 4 HOH A 21 424 21 HOH HOH . D 4 HOH A 22 425 22 HOH HOH . D 4 HOH A 23 426 23 HOH HOH . D 4 HOH A 24 427 24 HOH HOH . D 4 HOH A 25 428 25 HOH HOH . D 4 HOH A 26 429 26 HOH HOH . D 4 HOH A 27 430 27 HOH HOH . D 4 HOH A 28 431 28 HOH HOH . D 4 HOH A 29 432 29 HOH HOH . D 4 HOH A 30 433 30 HOH HOH . D 4 HOH A 31 434 31 HOH HOH . D 4 HOH A 32 435 32 HOH HOH . D 4 HOH A 33 436 33 HOH HOH . D 4 HOH A 34 437 34 HOH HOH . D 4 HOH A 35 438 35 HOH HOH . D 4 HOH A 36 439 36 HOH HOH . D 4 HOH A 37 440 37 HOH HOH . D 4 HOH A 38 441 38 HOH HOH . D 4 HOH A 39 442 39 HOH HOH . D 4 HOH A 40 443 40 HOH HOH . D 4 HOH A 41 444 41 HOH HOH . D 4 HOH A 42 445 42 HOH HOH . D 4 HOH A 43 446 43 HOH HOH . D 4 HOH A 44 447 44 HOH HOH . D 4 HOH A 45 448 45 HOH HOH . D 4 HOH A 46 449 46 HOH HOH . D 4 HOH A 47 450 47 HOH HOH . D 4 HOH A 48 451 48 HOH HOH . D 4 HOH A 49 452 49 HOH HOH . D 4 HOH A 50 453 50 HOH HOH . D 4 HOH A 51 454 51 HOH HOH . D 4 HOH A 52 455 52 HOH HOH . D 4 HOH A 53 456 53 HOH HOH . D 4 HOH A 54 457 54 HOH HOH . D 4 HOH A 55 458 55 HOH HOH . D 4 HOH A 56 459 56 HOH HOH . D 4 HOH A 57 460 57 HOH HOH . D 4 HOH A 58 461 58 HOH HOH . D 4 HOH A 59 462 59 HOH HOH . D 4 HOH A 60 463 60 HOH HOH . D 4 HOH A 61 464 61 HOH HOH . D 4 HOH A 62 465 62 HOH HOH . D 4 HOH A 63 466 63 HOH HOH . D 4 HOH A 64 467 64 HOH HOH . D 4 HOH A 65 468 65 HOH HOH . D 4 HOH A 66 469 66 HOH HOH . D 4 HOH A 67 470 67 HOH HOH . D 4 HOH A 68 471 68 HOH HOH . D 4 HOH A 69 472 69 HOH HOH . D 4 HOH A 70 473 70 HOH HOH . D 4 HOH A 71 474 71 HOH HOH . D 4 HOH A 72 475 72 HOH HOH . D 4 HOH A 73 476 73 HOH HOH . D 4 HOH A 74 477 74 HOH HOH . D 4 HOH A 75 478 75 HOH HOH . D 4 HOH A 76 479 76 HOH HOH . D 4 HOH A 77 480 77 HOH HOH . D 4 HOH A 78 481 78 HOH HOH . D 4 HOH A 79 482 79 HOH HOH . D 4 HOH A 80 483 80 HOH HOH . D 4 HOH A 81 484 81 HOH HOH . D 4 HOH A 82 485 82 HOH HOH . D 4 HOH A 83 486 83 HOH HOH . D 4 HOH A 84 487 84 HOH HOH . D 4 HOH A 85 488 85 HOH HOH . D 4 HOH A 86 489 86 HOH HOH . D 4 HOH A 87 490 87 HOH HOH . D 4 HOH A 88 491 88 HOH HOH . D 4 HOH A 89 492 89 HOH HOH . D 4 HOH A 90 493 90 HOH HOH . D 4 HOH A 91 494 91 HOH HOH . D 4 HOH A 92 495 92 HOH HOH . D 4 HOH A 93 496 93 HOH HOH . D 4 HOH A 94 497 94 HOH HOH . D 4 HOH A 95 498 95 HOH HOH . D 4 HOH A 96 499 96 HOH HOH . D 4 HOH A 97 500 97 HOH HOH . D 4 HOH A 98 501 98 HOH HOH . D 4 HOH A 99 502 99 HOH HOH . D 4 HOH A 100 503 100 HOH HOH . D 4 HOH A 101 504 101 HOH HOH . D 4 HOH A 102 505 102 HOH HOH . D 4 HOH A 103 506 103 HOH HOH . D 4 HOH A 104 507 104 HOH HOH . D 4 HOH A 105 508 105 HOH HOH . D 4 HOH A 106 509 106 HOH HOH . D 4 HOH A 107 510 107 HOH HOH . D 4 HOH A 108 511 108 HOH HOH . D 4 HOH A 109 512 109 HOH HOH . D 4 HOH A 110 513 110 HOH HOH . D 4 HOH A 111 514 111 HOH HOH . D 4 HOH A 112 515 112 HOH HOH . D 4 HOH A 113 516 113 HOH HOH . D 4 HOH A 114 517 114 HOH HOH . D 4 HOH A 115 518 115 HOH HOH . D 4 HOH A 116 519 116 HOH HOH . D 4 HOH A 117 520 117 HOH HOH . D 4 HOH A 118 521 118 HOH HOH . D 4 HOH A 119 522 119 HOH HOH . D 4 HOH A 120 523 120 HOH HOH . D 4 HOH A 121 524 121 HOH HOH . D 4 HOH A 122 525 122 HOH HOH . D 4 HOH A 123 526 123 HOH HOH . D 4 HOH A 124 527 124 HOH HOH . D 4 HOH A 125 528 125 HOH HOH . D 4 HOH A 126 529 126 HOH HOH . D 4 HOH A 127 530 127 HOH HOH . D 4 HOH A 128 531 128 HOH HOH . D 4 HOH A 129 532 129 HOH HOH . D 4 HOH A 130 533 130 HOH HOH . D 4 HOH A 131 534 131 HOH HOH . D 4 HOH A 132 535 132 HOH HOH . D 4 HOH A 133 536 133 HOH HOH . D 4 HOH A 134 537 134 HOH HOH . D 4 HOH A 135 538 135 HOH HOH . D 4 HOH A 136 539 136 HOH HOH . D 4 HOH A 137 540 137 HOH HOH . D 4 HOH A 138 541 138 HOH HOH . D 4 HOH A 139 542 139 HOH HOH . D 4 HOH A 140 543 140 HOH HOH . D 4 HOH A 141 544 141 HOH HOH . D 4 HOH A 142 545 142 HOH HOH . D 4 HOH A 143 546 143 HOH HOH . D 4 HOH A 144 547 144 HOH HOH . D 4 HOH A 145 548 145 HOH HOH . D 4 HOH A 146 549 146 HOH HOH . D 4 HOH A 147 550 147 HOH HOH . D 4 HOH A 148 551 148 HOH HOH . D 4 HOH A 149 552 149 HOH HOH . D 4 HOH A 150 553 150 HOH HOH . D 4 HOH A 151 554 151 HOH HOH . D 4 HOH A 152 555 152 HOH HOH . D 4 HOH A 153 556 153 HOH HOH . D 4 HOH A 154 557 154 HOH HOH . D 4 HOH A 155 558 155 HOH HOH . D 4 HOH A 156 559 156 HOH HOH . D 4 HOH A 157 560 157 HOH HOH . D 4 HOH A 158 561 158 HOH HOH . D 4 HOH A 159 562 159 HOH HOH . D 4 HOH A 160 563 160 HOH HOH . D 4 HOH A 161 564 161 HOH HOH . D 4 HOH A 162 565 162 HOH HOH . D 4 HOH A 163 566 163 HOH HOH . D 4 HOH A 164 567 164 HOH HOH . D 4 HOH A 165 568 165 HOH HOH . D 4 HOH A 166 569 166 HOH HOH . D 4 HOH A 167 570 167 HOH HOH . D 4 HOH A 168 571 168 HOH HOH . D 4 HOH A 169 572 169 HOH HOH . D 4 HOH A 170 573 170 HOH HOH . D 4 HOH A 171 574 171 HOH HOH . D 4 HOH A 172 575 172 HOH HOH . D 4 HOH A 173 576 173 HOH HOH . D 4 HOH A 174 577 174 HOH HOH . D 4 HOH A 175 578 175 HOH HOH . D 4 HOH A 176 579 176 HOH HOH . D 4 HOH A 177 580 177 HOH HOH . D 4 HOH A 178 581 178 HOH HOH . D 4 HOH A 179 582 179 HOH HOH . D 4 HOH A 180 583 180 HOH HOH . D 4 HOH A 181 584 181 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 3 71.011 9.975 16.121 1 12.1 ? PA NAD 402 A 1 HETATM 2 O O1A NAD . . . C 3 70.91 9.988 14.618 1 14.04 ? O1A NAD 402 A 1 HETATM 3 O O2A NAD . . . C 3 70.301 11.079 16.756 1 9.14 ? O2A NAD 402 A 1 HETATM 4 O O5B NAD . . . C 3 72.544 9.952 16.555 1 13.18 ? O5B NAD 402 A 1 HETATM 5 C C5B NAD . . . C 3 73.555 9.34 15.799 1 13.01 ? C5B NAD 402 A 1 HETATM 6 C C4B NAD . . . C 3 74.83 10.161 16.048 1 11.67 ? C4B NAD 402 A 1 HETATM 7 O O4B NAD . . . C 3 75.956 9.438 15.529 1 14.32 ? O4B NAD 402 A 1 HETATM 8 C C3B NAD . . . C 3 74.787 11.525 15.339 1 12.16 ? C3B NAD 402 A 1 HETATM 9 O O3B NAD . . . C 3 75.162 12.539 16.265 1 11.63 ? O3B NAD 402 A 1 HETATM 10 C C2B NAD . . . C 3 75.85 11.425 14.226 1 15.34 ? C2B NAD 402 A 1 HETATM 11 O O2B NAD . . . C 3 76.524 12.665 13.917 1 14.07 ? O2B NAD 402 A 1 HETATM 12 C C1B NAD . . . C 3 76.779 10.386 14.863 1 14.76 ? C1B NAD 402 A 1 HETATM 13 N N9A NAD . . . C 3 77.651 9.728 13.891 1 16.38 ? N9A NAD 402 A 1 HETATM 14 C C8A NAD . . . C 3 77.348 9.265 12.613 1 14.22 ? C8A NAD 402 A 1 HETATM 15 N N7A NAD . . . C 3 78.461 8.729 12.09 1 14.52 ? N7A NAD 402 A 1 HETATM 16 C C5A NAD . . . C 3 79.463 8.863 12.987 1 15.57 ? C5A NAD 402 A 1 HETATM 17 C C6A NAD . . . C 3 80.807 8.516 12.967 1 15.5 ? C6A NAD 402 A 1 HETATM 18 N N6A NAD . . . C 3 81.442 8.177 11.833 1 17.15 ? N6A NAD 402 A 1 HETATM 19 N N1A NAD . . . C 3 81.539 8.816 14.081 1 15.79 ? N1A NAD 402 A 1 HETATM 20 C C2A NAD . . . C 3 81.045 9.425 15.216 1 14.55 ? C2A NAD 402 A 1 HETATM 21 N N3A NAD . . . C 3 79.712 9.788 15.221 1 13.15 ? N3A NAD 402 A 1 HETATM 22 C C4A NAD . . . C 3 78.956 9.499 14.137 1 15.07 ? C4A NAD 402 A 1 HETATM 23 O O3 NAD . . . C 3 70.441 8.518 16.546 1 12.19 ? O3 NAD 402 A 1 HETATM 24 P PN NAD . . . C 3 70.121 7.956 18.034 1 10.79 ? PN NAD 402 A 1 HETATM 25 O O1N NAD . . . C 3 71.151 8.521 18.976 1 9.9 ? O1N NAD 402 A 1 HETATM 26 O O2N NAD . . . C 3 68.648 7.989 18.259 1 10.9 ? O2N NAD 402 A 1 HETATM 27 O O5D NAD . . . C 3 70.541 6.438 17.828 1 11.58 ? O5D NAD 402 A 1 HETATM 28 C C5D NAD . . . C 3 71.865 6.154 17.355 1 12.43 ? C5D NAD 402 A 1 HETATM 29 C C4D NAD . . . C 3 71.972 4.678 16.971 1 12.42 ? C4D NAD 402 A 1 HETATM 30 O O4D NAD . . . C 3 71.743 3.863 18.113 1 11.76 ? O4D NAD 402 A 1 HETATM 31 C C3D NAD . . . C 3 70.927 4.21 15.951 1 14.26 ? C3D NAD 402 A 1 HETATM 32 O O3D NAD . . . C 3 71.283 4.53 14.625 1 16.67 ? O3D NAD 402 A 1 HETATM 33 C C2D NAD . . . C 3 70.87 2.7 16.234 1 11.77 ? C2D NAD 402 A 1 HETATM 34 O O2D NAD . . . C 3 71.795 1.964 15.447 1 12.03 ? O2D NAD 402 A 1 HETATM 35 C C1D NAD . . . C 3 71.23 2.593 17.735 1 11.43 ? C1D NAD 402 A 1 HETATM 36 N N1N NAD . . . C 3 69.979 2.318 18.482 1 10.63 ? N1N NAD 402 A 1 HETATM 37 C C2N NAD . . . C 3 69.855 1.126 19.155 1 10.05 ? C2N NAD 402 A 1 HETATM 38 C C3N NAD . . . C 3 68.686 0.844 19.852 1 11.94 ? C3N NAD 402 A 1 HETATM 39 C C7N NAD . . . C 3 68.584 -0.309 20.795 1 8.41 ? C7N NAD 402 A 1 HETATM 40 O O7N NAD . . . C 3 69.706 -0.928 21.376 1 9.94 ? O7N NAD 402 A 1 HETATM 41 N N7N NAD . . . C 3 67.364 -0.688 21.105 1 11.03 ? N7N NAD 402 A 1 HETATM 42 C C4N NAD . . . C 3 67.645 1.782 19.849 1 11.04 ? C4N NAD 402 A 1 HETATM 43 C C5N NAD . . . C 3 67.772 2.991 19.15 1 11.49 ? C5N NAD 402 A 1 HETATM 44 C C6N NAD . . . C 3 68.968 3.253 18.458 1 8.46 ? C6N NAD 402 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 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #