data_1D7O # _model_server_result.job_id FWDdt3dMy5aHlOHnzF2GhQ _model_server_result.datetime_utc '2024-11-26 11:47:05' _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 1d7o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 1D7O # _exptl.entry_id 1D7O _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 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 90 _cell.entry_id 1D7O _cell.length_a 70.5 _cell.length_b 70.5 _cell.length_c 118 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D7O _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 7_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 118 4 'crystal symmetry operation' 8_556 -y,-x,-z+1 0 -1 0 -1 0 0 0 0 -1 0 0 118 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 237 n n PA O2A NAD sing 238 n n PA O5B NAD sing 239 n n PA O3 NAD sing 240 n n O2A HOA2 NAD sing 241 n n O5B C5B NAD sing 242 n n C5B C4B NAD sing 243 n n C5B H51A NAD sing 244 n n C5B H52A NAD sing 245 n n C4B O4B NAD sing 246 n n C4B C3B NAD sing 247 n n C4B H4B NAD sing 248 n n O4B C1B NAD sing 249 n n C3B O3B NAD sing 250 n n C3B C2B NAD sing 251 n n C3B H3B NAD sing 252 n n O3B HO3A NAD sing 253 n n C2B O2B NAD sing 254 n n C2B C1B NAD sing 255 n n C2B H2B NAD sing 256 n n O2B HO2A NAD sing 257 n n C1B N9A NAD sing 258 n n C1B H1B NAD sing 259 n n N9A C8A NAD sing 260 n y N9A C4A NAD sing 261 n y C8A N7A NAD doub 262 n y C8A H8A NAD sing 263 n n N7A C5A NAD sing 264 n y C5A C6A NAD sing 265 n y C5A C4A NAD doub 266 n y C6A N6A NAD sing 267 n n C6A N1A NAD doub 268 n y N6A H61A NAD sing 269 n n N6A H62A NAD sing 270 n n N1A C2A NAD sing 271 n y C2A N3A NAD doub 272 n y C2A H2A NAD sing 273 n n N3A C4A NAD sing 274 n y O3 PN NAD sing 275 n n PN O1N NAD doub 276 n n PN O2N NAD sing 277 n n PN O5D NAD sing 278 n n O5D C5D NAD sing 279 n n C5D C4D NAD sing 280 n n C5D H51N NAD sing 281 n n C5D H52N NAD sing 282 n n C4D O4D NAD sing 283 n n C4D C3D NAD sing 284 n n C4D H4D NAD sing 285 n n O4D C1D NAD sing 286 n n C3D O3D NAD sing 287 n n C3D C2D NAD sing 288 n n C3D H3D NAD sing 289 n n O3D HO3N NAD sing 290 n n C2D O2D NAD sing 291 n n C2D C1D NAD sing 292 n n C2D H2D NAD sing 293 n n O2D HO2N NAD sing 294 n n C1D N1N NAD sing 295 n n C1D H1D NAD sing 296 n n N1N C2N NAD sing 297 n y N1N C6N NAD doub 298 n y C2N C3N NAD doub 299 n y C2N H2N NAD sing 300 n n C3N C7N NAD sing 301 n n C3N C4N NAD sing 302 n y C7N O7N NAD doub 303 n n C7N N7N NAD sing 304 n n N7N H71N NAD sing 305 n n N7N H72N NAD sing 306 n n C4N C5N NAD doub 307 n y C4N H4N NAD sing 308 n n C5N C6N NAD sing 309 n y C5N H5N NAD sing 310 n n C6N H6N NAD sing 311 n n # _atom_sites.entry_id 1D7O _atom_sites.fract_transf_matrix[1][1] 0.014184 _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] 0.014184 _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] 0.008475 _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 NAD A 1 501 501 NAD NAD . C 3 TCL A 1 502 502 TCL TCL . D 4 HOH A 1 503 1 HOH WAT . D 4 HOH A 2 504 2 HOH WAT . D 4 HOH A 3 505 3 HOH WAT . D 4 HOH A 4 506 4 HOH WAT . D 4 HOH A 5 507 5 HOH WAT . D 4 HOH A 6 508 6 HOH WAT . D 4 HOH A 7 509 7 HOH WAT . D 4 HOH A 8 510 8 HOH WAT . D 4 HOH A 9 511 9 HOH WAT . D 4 HOH A 10 512 10 HOH WAT . D 4 HOH A 11 513 11 HOH WAT . D 4 HOH A 12 514 12 HOH WAT . D 4 HOH A 13 515 13 HOH WAT . D 4 HOH A 14 516 14 HOH WAT . D 4 HOH A 15 517 15 HOH WAT . D 4 HOH A 16 518 16 HOH WAT . D 4 HOH A 17 519 17 HOH WAT . D 4 HOH A 18 520 18 HOH WAT . D 4 HOH A 19 521 19 HOH WAT . D 4 HOH A 20 522 20 HOH WAT . D 4 HOH A 21 523 21 HOH WAT . D 4 HOH A 22 524 22 HOH WAT . D 4 HOH A 23 525 23 HOH WAT . D 4 HOH A 24 526 24 HOH WAT . D 4 HOH A 25 527 25 HOH WAT . D 4 HOH A 26 528 26 HOH WAT . D 4 HOH A 27 529 27 HOH WAT . D 4 HOH A 28 530 28 HOH WAT . D 4 HOH A 29 531 29 HOH WAT . D 4 HOH A 30 532 30 HOH WAT . D 4 HOH A 31 533 31 HOH WAT . D 4 HOH A 32 534 32 HOH WAT . D 4 HOH A 33 535 33 HOH WAT . D 4 HOH A 34 536 34 HOH WAT . D 4 HOH A 35 537 35 HOH WAT . D 4 HOH A 36 538 36 HOH WAT . D 4 HOH A 37 539 37 HOH WAT . D 4 HOH A 38 540 38 HOH WAT . D 4 HOH A 39 541 39 HOH WAT . D 4 HOH A 40 542 40 HOH WAT . D 4 HOH A 41 543 41 HOH WAT . D 4 HOH A 42 544 42 HOH WAT . D 4 HOH A 43 545 43 HOH WAT . D 4 HOH A 44 546 44 HOH WAT . D 4 HOH A 45 547 45 HOH WAT . D 4 HOH A 46 548 46 HOH WAT . D 4 HOH A 47 549 47 HOH WAT . D 4 HOH A 48 550 48 HOH WAT . D 4 HOH A 49 551 49 HOH WAT . D 4 HOH A 50 552 50 HOH WAT . D 4 HOH A 51 553 51 HOH WAT . D 4 HOH A 52 554 52 HOH WAT . D 4 HOH A 53 555 53 HOH WAT . D 4 HOH A 54 556 54 HOH WAT . D 4 HOH A 55 557 55 HOH WAT . D 4 HOH A 56 558 56 HOH WAT . D 4 HOH A 57 559 57 HOH WAT . D 4 HOH A 58 560 58 HOH WAT . D 4 HOH A 59 561 59 HOH WAT . D 4 HOH A 60 562 60 HOH WAT . D 4 HOH A 61 563 61 HOH WAT . D 4 HOH A 62 564 62 HOH WAT . D 4 HOH A 63 565 63 HOH WAT . D 4 HOH A 64 566 64 HOH WAT . D 4 HOH A 65 567 65 HOH WAT . D 4 HOH A 66 568 66 HOH WAT . D 4 HOH A 67 569 67 HOH WAT . D 4 HOH A 68 570 68 HOH WAT . D 4 HOH A 69 571 69 HOH WAT . D 4 HOH A 70 572 70 HOH WAT . D 4 HOH A 71 573 71 HOH WAT . D 4 HOH A 72 574 72 HOH WAT . D 4 HOH A 73 575 73 HOH WAT . D 4 HOH A 74 576 74 HOH WAT . D 4 HOH A 75 577 75 HOH WAT . D 4 HOH A 76 578 76 HOH WAT . D 4 HOH A 77 579 77 HOH WAT . D 4 HOH A 78 580 78 HOH WAT . D 4 HOH A 79 581 79 HOH WAT . D 4 HOH A 80 582 80 HOH WAT . D 4 HOH A 81 583 81 HOH WAT . D 4 HOH A 82 584 82 HOH WAT . D 4 HOH A 83 585 83 HOH WAT . D 4 HOH A 84 586 84 HOH WAT . D 4 HOH A 85 587 85 HOH WAT . D 4 HOH A 86 588 86 HOH WAT . D 4 HOH A 87 589 87 HOH WAT . D 4 HOH A 88 590 88 HOH WAT . # 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 . . . B 2 3.514 20.103 39.539 1 34.29 ? PA NAD 501 A 1 HETATM 2 O O1A NAD . . . B 2 2.632 20.213 38.301 1 76.44 ? O1A NAD 501 A 1 HETATM 3 O O2A NAD . . . B 2 4.392 21.23 40.004 1 44.21 ? O2A NAD 501 A 1 HETATM 4 O O5B NAD . . . B 2 4.365 18.812 39.436 1 50.86 ? O5B NAD 501 A 1 HETATM 5 C C5B NAD . . . B 2 4.038 17.713 38.501 1 34.82 ? C5B NAD 501 A 1 HETATM 6 C C4B NAD . . . B 2 5.036 17.769 37.493 1 37.58 ? C4B NAD 501 A 1 HETATM 7 O O4B NAD . . . B 2 5.026 16.582 36.653 1 31.19 ? O4B NAD 501 A 1 HETATM 8 C C3B NAD . . . B 2 4.978 18.954 36.467 1 31.34 ? C3B NAD 501 A 1 HETATM 9 O O3B NAD . . . B 2 6.223 19.761 36.644 1 35.68 ? O3B NAD 501 A 1 HETATM 10 C C2B NAD . . . B 2 4.879 18.327 35.097 1 79.47 ? C2B NAD 501 A 1 HETATM 11 O O2B NAD . . . B 2 5.436 18.97 34.046 1 26.97 ? O2B NAD 501 A 1 HETATM 12 C C1B NAD . . . B 2 5.519 16.998 35.451 1 31.19 ? C1B NAD 501 A 1 HETATM 13 N N9A NAD . . . B 2 5.17 16.021 34.552 1 31.91 ? N9A NAD 501 A 1 HETATM 14 C C8A NAD . . . B 2 3.933 15.533 34.189 1 31.49 ? C8A NAD 501 A 1 HETATM 15 N N7A NAD . . . B 2 3.968 14.586 33.282 1 25.15 ? N7A NAD 501 A 1 HETATM 16 C C5A NAD . . . B 2 5.282 14.387 33.018 1 20.93 ? C5A NAD 501 A 1 HETATM 17 C C6A NAD . . . B 2 5.943 13.477 32.076 1 20.53 ? C6A NAD 501 A 1 HETATM 18 N N6A NAD . . . B 2 5.345 12.605 31.319 1 21 ? N6A NAD 501 A 1 HETATM 19 N N1A NAD . . . B 2 7.294 13.623 32.074 1 23.86 ? N1A NAD 501 A 1 HETATM 20 C C2A NAD . . . B 2 8.008 14.465 32.804 1 39.73 ? C2A NAD 501 A 1 HETATM 21 N N3A NAD . . . B 2 7.431 15.364 33.696 1 28.8 ? N3A NAD 501 A 1 HETATM 22 C C4A NAD . . . B 2 6.036 15.285 33.78 1 18.23 ? C4A NAD 501 A 1 HETATM 23 O O3 NAD . . . B 2 2.653 19.669 40.757 1 62.43 ? O3 NAD 501 A 1 HETATM 24 P PN NAD . . . B 2 2.986 19.251 42.358 1 31.67 ? PN NAD 501 A 1 HETATM 25 O O1N NAD . . . B 2 1.728 19.407 43.058 1 40.47 ? O1N NAD 501 A 1 HETATM 26 O O2N NAD . . . B 2 4.235 19.917 42.797 1 24.48 ? O2N NAD 501 A 1 HETATM 27 O O5D NAD . . . B 2 3.351 17.651 42.262 1 33.53 ? O5D NAD 501 A 1 HETATM 28 C C5D NAD . . . B 2 4.699 17.119 42.492 1 23.95 ? C5D NAD 501 A 1 HETATM 29 C C4D NAD . . . B 2 4.629 15.768 43.028 1 21.46 ? C4D NAD 501 A 1 HETATM 30 O O4D NAD . . . B 2 3.992 15.955 44.419 1 25.31 ? O4D NAD 501 A 1 HETATM 31 C C3D NAD . . . B 2 3.584 14.742 42.386 1 18.24 ? C3D NAD 501 A 1 HETATM 32 O O3D NAD . . . B 2 4.198 13.53 42.51 1 20.14 ? O3D NAD 501 A 1 HETATM 33 C C2D NAD . . . B 2 2.297 14.866 43.22 1 22.04 ? C2D NAD 501 A 1 HETATM 34 O O2D NAD . . . B 2 1.517 13.731 43.195 1 22.43 ? O2D NAD 501 A 1 HETATM 35 C C1D NAD . . . B 2 2.938 15.076 44.591 1 19.67 ? C1D NAD 501 A 1 HETATM 36 N N1N NAD . . . B 2 2.02 15.687 45.612 1 25.97 ? N1N NAD 501 A 1 HETATM 37 C C2N NAD . . . B 2 1.497 16.99 45.419 1 30.78 ? C2N NAD 501 A 1 HETATM 38 C C3N NAD . . . B 2 0.68 17.387 46.436 1 23.13 ? C3N NAD 501 A 1 HETATM 39 C C7N NAD . . . B 2 0.088 18.847 46.186 1 30.61 ? C7N NAD 501 A 1 HETATM 40 O O7N NAD . . . B 2 -0.679 19.304 47.024 1 31.24 ? O7N NAD 501 A 1 HETATM 41 N N7N NAD . . . B 2 0.47 19.501 45.106 1 31.01 ? N7N NAD 501 A 1 HETATM 42 C C4N NAD . . . B 2 0.325 16.648 47.578 1 23.18 ? C4N NAD 501 A 1 HETATM 43 C C5N NAD . . . B 2 0.928 15.367 47.623 1 22.04 ? C5N NAD 501 A 1 HETATM 44 C C6N NAD . . . B 2 1.768 14.892 46.65 1 24.56 ? C6N NAD 501 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 1081 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 44 #