data_3B1F # _model_server_result.job_id ZyC-ILZmOPMVVUhaTQDFfQ _model_server_result.datetime_utc '2025-03-04 22:23:42' _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 3b1f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 3B1F # _exptl.entry_id 3B1F _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 3B1F _cell.length_a 79.34 _cell.length_b 145.624 _cell.length_c 77.552 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3B1F _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _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 _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' 4_556 x,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 77.552 # _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 # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A C ALA 3 A ALA 0 1_555 A N MSE 4 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale2 A C MSE 4 A MSE 1 1_555 A N GLU 5 A GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale3 A C PRO 127 A PRO 124 1_555 A N MSE 128 A MSE 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale4 A C MSE 128 A MSE 125 1_555 A N ALA 129 A ALA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale5 A C LEU 202 A LEU 199 1_555 A N MSE 203 A MSE 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale6 A C MSE 203 A MSE 200 1_555 A N LYS 204 A LYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale7 A C GLU 214 A GLU 211 1_555 A N MSE 215 A MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale8 A C MSE 215 A MSE 212 1_555 A N THR 216 A THR 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale9 A C ASP 226 A ASP 223 1_555 A N MSE 227 A MSE 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? covale ? covale10 A C MSE 227 A MSE 224 1_555 A N THR 228 A THR 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale11 A C GLY 236 A GLY 233 1_555 A N MSE 237 A MSE 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale12 A C MSE 237 A MSE 234 1_555 A N TRP 238 A TRP 235 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale13 A C ASN 288 A ASN 285 1_555 A N MSE 289 A MSE 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale14 A C MSE 289 A MSE 286 1_555 A N GLU 290 A GLU 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 3B1F _atom_sites.fract_transf_matrix[1][1] 0.012604 _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] 0.006867 _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] 0.012895 _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 1001 1001 NAD NAD . C 3 HOH A 1 288 1 HOH HOH . C 3 HOH A 2 289 3 HOH HOH . C 3 HOH A 3 290 4 HOH HOH . C 3 HOH A 4 291 5 HOH HOH . C 3 HOH A 5 292 6 HOH HOH . C 3 HOH A 6 293 7 HOH HOH . C 3 HOH A 7 294 8 HOH HOH . C 3 HOH A 8 295 9 HOH HOH . C 3 HOH A 9 296 10 HOH HOH . C 3 HOH A 10 297 11 HOH HOH . C 3 HOH A 11 298 12 HOH HOH . C 3 HOH A 12 299 13 HOH HOH . C 3 HOH A 13 300 14 HOH HOH . C 3 HOH A 14 301 15 HOH HOH . C 3 HOH A 15 302 16 HOH HOH . C 3 HOH A 16 303 18 HOH HOH . C 3 HOH A 17 304 19 HOH HOH . C 3 HOH A 18 305 20 HOH HOH . C 3 HOH A 19 306 21 HOH HOH . C 3 HOH A 20 307 22 HOH HOH . C 3 HOH A 21 308 23 HOH HOH . C 3 HOH A 22 309 24 HOH HOH . C 3 HOH A 23 310 25 HOH HOH . C 3 HOH A 24 311 26 HOH HOH . C 3 HOH A 25 312 27 HOH HOH . C 3 HOH A 26 313 28 HOH HOH . C 3 HOH A 27 314 29 HOH HOH . C 3 HOH A 28 315 30 HOH HOH . C 3 HOH A 29 316 31 HOH HOH . C 3 HOH A 30 317 32 HOH HOH . C 3 HOH A 31 318 33 HOH HOH . C 3 HOH A 32 319 34 HOH HOH . C 3 HOH A 33 320 35 HOH HOH . C 3 HOH A 34 321 36 HOH HOH . C 3 HOH A 35 322 38 HOH HOH . C 3 HOH A 36 323 39 HOH HOH . C 3 HOH A 37 324 40 HOH HOH . C 3 HOH A 38 325 41 HOH HOH . C 3 HOH A 39 326 42 HOH HOH . C 3 HOH A 40 327 43 HOH HOH . C 3 HOH A 41 328 44 HOH HOH . C 3 HOH A 42 329 45 HOH HOH . C 3 HOH A 43 330 46 HOH HOH . C 3 HOH A 44 331 47 HOH HOH . C 3 HOH A 45 332 48 HOH HOH . C 3 HOH A 46 333 49 HOH HOH . C 3 HOH A 47 334 50 HOH HOH . C 3 HOH A 48 335 51 HOH HOH . C 3 HOH A 49 336 52 HOH HOH . C 3 HOH A 50 337 53 HOH HOH . C 3 HOH A 51 338 54 HOH HOH . C 3 HOH A 52 339 55 HOH HOH . C 3 HOH A 53 340 56 HOH HOH . C 3 HOH A 54 341 57 HOH HOH . C 3 HOH A 55 342 59 HOH HOH . C 3 HOH A 56 343 60 HOH HOH . C 3 HOH A 57 344 61 HOH HOH . C 3 HOH A 58 345 62 HOH HOH . C 3 HOH A 59 346 63 HOH HOH . C 3 HOH A 60 347 66 HOH HOH . C 3 HOH A 61 348 67 HOH HOH . C 3 HOH A 62 349 68 HOH HOH . C 3 HOH A 63 350 69 HOH HOH . C 3 HOH A 64 351 70 HOH HOH . C 3 HOH A 65 352 71 HOH HOH . C 3 HOH A 66 353 72 HOH HOH . C 3 HOH A 67 354 73 HOH HOH . C 3 HOH A 68 355 74 HOH HOH . C 3 HOH A 69 356 76 HOH HOH . C 3 HOH A 70 357 77 HOH HOH . C 3 HOH A 71 358 78 HOH HOH . C 3 HOH A 72 359 79 HOH HOH . C 3 HOH A 73 360 80 HOH HOH . C 3 HOH A 74 361 83 HOH HOH . C 3 HOH A 75 362 84 HOH HOH . C 3 HOH A 76 363 85 HOH HOH . C 3 HOH A 77 364 86 HOH HOH . C 3 HOH A 78 365 87 HOH HOH . C 3 HOH A 79 366 88 HOH HOH . C 3 HOH A 80 367 89 HOH HOH . C 3 HOH A 81 368 90 HOH HOH . C 3 HOH A 82 369 91 HOH HOH . C 3 HOH A 83 370 92 HOH HOH . C 3 HOH A 84 371 93 HOH HOH . C 3 HOH A 85 372 94 HOH HOH . C 3 HOH A 86 373 95 HOH HOH . C 3 HOH A 87 374 96 HOH HOH . C 3 HOH A 88 375 97 HOH HOH . C 3 HOH A 89 376 98 HOH HOH . C 3 HOH A 90 377 99 HOH HOH . C 3 HOH A 91 378 100 HOH HOH . C 3 HOH A 92 379 101 HOH HOH . C 3 HOH A 93 380 102 HOH HOH . C 3 HOH A 94 381 103 HOH HOH . C 3 HOH A 95 382 104 HOH HOH . C 3 HOH A 96 383 105 HOH HOH . C 3 HOH A 97 384 106 HOH HOH . C 3 HOH A 98 385 107 HOH HOH . C 3 HOH A 99 386 109 HOH HOH . C 3 HOH A 100 387 110 HOH HOH . C 3 HOH A 101 388 111 HOH HOH . C 3 HOH A 102 389 113 HOH HOH . C 3 HOH A 103 390 114 HOH HOH . C 3 HOH A 104 391 115 HOH HOH . C 3 HOH A 105 392 117 HOH HOH . C 3 HOH A 106 393 118 HOH HOH . C 3 HOH A 107 394 120 HOH HOH . C 3 HOH A 108 395 122 HOH HOH . C 3 HOH A 109 396 124 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 . . . B 2 24.474 20.305 26.371 1 52.02 ? PA NAD 1001 A 1 HETATM 2 O O1A NAD . . . B 2 23.023 20.01 26.496 1 52.01 ? O1A NAD 1001 A 1 HETATM 3 O O2A NAD . . . B 2 25.113 19.48 25.321 1 53.57 ? O2A NAD 1001 A 1 HETATM 4 O O5B NAD . . . B 2 24.715 21.892 26.087 1 53.79 ? O5B NAD 1001 A 1 HETATM 5 C C5B NAD . . . B 2 25.99 22.422 25.7 1 52.87 ? C5B NAD 1001 A 1 HETATM 6 C C4B NAD . . . B 2 25.824 23.879 25.253 1 52.03 ? C4B NAD 1001 A 1 HETATM 7 O O4B NAD . . . B 2 27.076 24.508 25.018 1 51.76 ? O4B NAD 1001 A 1 HETATM 8 C C3B NAD . . . B 2 25.003 24.076 23.969 1 50.61 ? C3B NAD 1001 A 1 HETATM 9 O O3B NAD . . . B 2 24.263 25.241 24.235 1 48.66 ? O3B NAD 1001 A 1 HETATM 10 C C2B NAD . . . B 2 26.025 24.353 22.847 1 50.74 ? C2B NAD 1001 A 1 HETATM 11 O O2B NAD . . . B 2 25.567 24.872 21.549 1 48.62 ? O2B NAD 1001 A 1 HETATM 12 C C1B NAD . . . B 2 27.1 25.085 23.692 1 50.54 ? C1B NAD 1001 A 1 HETATM 13 N N9A NAD . . . B 2 28.481 24.99 23.156 1 48.72 ? N9A NAD 1001 A 1 HETATM 14 C C8A NAD . . . B 2 29.262 23.855 23.099 1 47.87 ? C8A NAD 1001 A 1 HETATM 15 N N7A NAD . . . B 2 30.457 24.174 22.566 1 46.3 ? N7A NAD 1001 A 1 HETATM 16 C C5A NAD . . . B 2 30.459 25.495 22.299 1 47.71 ? C5A NAD 1001 A 1 HETATM 17 C C6A NAD . . . B 2 31.426 26.333 21.729 1 49.17 ? C6A NAD 1001 A 1 HETATM 18 N N6A NAD . . . B 2 32.564 25.807 21.258 1 47.35 ? N6A NAD 1001 A 1 HETATM 19 N N1A NAD . . . B 2 31.12 27.693 21.554 1 50.8 ? N1A NAD 1001 A 1 HETATM 20 C C2A NAD . . . B 2 29.879 28.226 21.933 1 49.87 ? C2A NAD 1001 A 1 HETATM 21 N N3A NAD . . . B 2 28.941 27.367 22.494 1 48.44 ? N3A NAD 1001 A 1 HETATM 22 C C4A NAD . . . B 2 29.221 26.034 22.665 1 47.71 ? C4A NAD 1001 A 1 HETATM 23 O O3 NAD . . . B 2 25.3 20.04 27.742 1 50.03 ? O3 NAD 1001 A 1 HETATM 24 P PN NAD . . . B 2 24.821 20.548 29.217 1 47.35 ? PN NAD 1001 A 1 HETATM 25 O O1N NAD . . . B 2 23.929 21.752 29.102 1 40.36 ? O1N NAD 1001 A 1 HETATM 26 O O2N NAD . . . B 2 24.393 19.257 29.856 1 46.88 ? O2N NAD 1001 A 1 HETATM 27 O O5D NAD . . . B 2 26.194 20.983 29.985 1 44.59 ? O5D NAD 1001 A 1 HETATM 28 C C5D NAD . . . B 2 26.918 22.163 29.736 1 42.84 ? C5D NAD 1001 A 1 HETATM 29 C C4D NAD . . . B 2 28.018 22.165 30.789 1 41.45 ? C4D NAD 1001 A 1 HETATM 30 O O4D NAD . . . B 2 27.417 22.201 32.095 1 40.49 ? O4D NAD 1001 A 1 HETATM 31 C C3D NAD . . . B 2 28.939 20.924 30.79 1 42.3 ? C3D NAD 1001 A 1 HETATM 32 O O3D NAD . . . B 2 30.001 20.885 29.807 1 42.84 ? O3D NAD 1001 A 1 HETATM 33 C C2D NAD . . . B 2 29.346 20.763 32.271 1 40.97 ? C2D NAD 1001 A 1 HETATM 34 O O2D NAD . . . B 2 30.53 21.453 32.649 1 38.03 ? O2D NAD 1001 A 1 HETATM 35 C C1D NAD . . . B 2 28.18 21.422 33.04 1 41.24 ? C1D NAD 1001 A 1 HETATM 36 N N1N NAD . . . B 2 27.328 20.447 33.794 1 41.49 ? N1N NAD 1001 A 1 HETATM 37 C C2N NAD . . . B 2 26.832 19.316 33.145 1 41.04 ? C2N NAD 1001 A 1 HETATM 38 C C3N NAD . . . B 2 26.005 18.401 33.796 1 42.26 ? C3N NAD 1001 A 1 HETATM 39 C C7N NAD . . . B 2 25.414 17.199 33.064 1 43.99 ? C7N NAD 1001 A 1 HETATM 40 O O7N NAD . . . B 2 25.242 15.998 33.769 1 46.67 ? O7N NAD 1001 A 1 HETATM 41 N N7N NAD . . . B 2 25.045 17.248 31.789 1 41.95 ? N7N NAD 1001 A 1 HETATM 42 C C4N NAD . . . B 2 25.692 18.648 35.141 1 40.32 ? C4N NAD 1001 A 1 HETATM 43 C C5N NAD . . . B 2 26.175 19.791 35.769 1 38.95 ? C5N NAD 1001 A 1 HETATM 44 C C6N NAD . . . B 2 26.997 20.705 35.094 1 38 ? C6N NAD 1001 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #