data_1LY3
#
_model_server_result.job_id            33z9zQ3KBxhmsKrPTYiejQ 
_model_server_result.datetime_utc      '2024-11-07 14:43:25' 
_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          1ly3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":207}' 
#
_entry.id    1LY3 
#
_exptl.entry_id    1LY3 
_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    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.77 
_cell.angle_gamma         90 
_cell.entry_id            1LY3 
_cell.length_a            37.373 
_cell.length_b            43.263 
_cell.length_c            61.372 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1LY3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_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 
#
_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 
#
_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 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 285 n n 
PA O2A NAP sing 286 n n 
PA O5B NAP sing 287 n n 
PA O3 NAP sing 288 n n 
O2A HOA2 NAP sing 289 n n 
O5B C5B NAP sing 290 n n 
C5B C4B NAP sing 291 n n 
C5B H51A NAP sing 292 n n 
C5B H52A NAP sing 293 n n 
C4B O4B NAP sing 294 n n 
C4B C3B NAP sing 295 n n 
C4B H4B NAP sing 296 n n 
O4B C1B NAP sing 297 n n 
C3B O3B NAP sing 298 n n 
C3B C2B NAP sing 299 n n 
C3B H3B NAP sing 300 n n 
O3B HO3A NAP sing 301 n n 
C2B O2B NAP sing 302 n n 
C2B C1B NAP sing 303 n n 
C2B H2B NAP sing 304 n n 
O2B P2B NAP sing 305 n n 
C1B N9A NAP sing 306 n n 
C1B H1B NAP sing 307 n n 
N9A C8A NAP sing 308 n y 
N9A C4A NAP sing 309 n y 
C8A N7A NAP doub 310 n y 
C8A H8A NAP sing 311 n n 
N7A C5A NAP sing 312 n y 
C5A C6A NAP sing 313 n y 
C5A C4A NAP doub 314 n y 
C6A N6A NAP sing 315 n n 
C6A N1A NAP doub 316 n y 
N6A H61A NAP sing 317 n n 
N6A H62A NAP sing 318 n n 
N1A C2A NAP sing 319 n y 
C2A N3A NAP doub 320 n y 
C2A H2A NAP sing 321 n n 
N3A C4A NAP sing 322 n y 
O3 PN NAP sing 323 n n 
PN O1N NAP doub 324 n n 
PN O2N NAP sing 325 n n 
PN O5D NAP sing 326 n n 
O5D C5D NAP sing 327 n n 
C5D C4D NAP sing 328 n n 
C5D H51N NAP sing 329 n n 
C5D H52N NAP sing 330 n n 
C4D O4D NAP sing 331 n n 
C4D C3D NAP sing 332 n n 
C4D H4D NAP sing 333 n n 
O4D C1D NAP sing 334 n n 
C3D O3D NAP sing 335 n n 
C3D C2D NAP sing 336 n n 
C3D H3D NAP sing 337 n n 
O3D HO3N NAP sing 338 n n 
C2D O2D NAP sing 339 n n 
C2D C1D NAP sing 340 n n 
C2D H2D NAP sing 341 n n 
O2D HO2N NAP sing 342 n n 
C1D N1N NAP sing 343 n n 
C1D H1D NAP sing 344 n n 
N1N C2N NAP sing 345 n y 
N1N C6N NAP doub 346 n y 
C2N C3N NAP doub 347 n y 
C2N H2N NAP sing 348 n n 
C3N C7N NAP sing 349 n n 
C3N C4N NAP sing 350 n y 
C7N O7N NAP doub 351 n n 
C7N N7N NAP sing 352 n n 
N7N H71N NAP sing 353 n n 
N7N H72N NAP sing 354 n n 
C4N C5N NAP doub 355 n y 
C4N H4N NAP sing 356 n n 
C5N C6N NAP sing 357 n y 
C5N H5N NAP sing 358 n n 
C6N H6N NAP sing 359 n n 
P2B O1X NAP doub 360 n n 
P2B O2X NAP sing 361 n n 
P2B O3X NAP sing 362 n n 
O2X HOP2 NAP sing 363 n n 
O3X HOP3 NAP sing 364 n n 
#
_atom_sites.entry_id                     1LY3 
_atom_sites.fract_transf_matrix[1][1]    0.026757 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002233 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.023114 
_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]    0.016351 
_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 NAP A 1 207 207 NAP COE . 
C 3 COG A 1 307 207 COG COE . 
D 4 HOH A 1 208 208 HOH HOH . 
D 4 HOH A 2 209 209 HOH HOH . 
D 4 HOH A 3 210 210 HOH HOH . 
D 4 HOH A 4 211 211 HOH HOH . 
D 4 HOH A 5 212 212 HOH HOH . 
D 4 HOH A 6 213 213 HOH HOH . 
D 4 HOH A 7 214 214 HOH HOH . 
D 4 HOH A 8 215 215 HOH HOH . 
D 4 HOH A 9 216 216 HOH HOH . 
D 4 HOH A 10 217 217 HOH HOH . 
D 4 HOH A 11 218 218 HOH HOH . 
D 4 HOH A 12 219 219 HOH HOH . 
D 4 HOH A 13 220 220 HOH HOH . 
D 4 HOH A 14 221 221 HOH HOH . 
D 4 HOH A 15 222 222 HOH HOH . 
D 4 HOH A 16 223 223 HOH HOH . 
D 4 HOH A 17 224 224 HOH HOH . 
D 4 HOH A 18 225 225 HOH HOH . 
D 4 HOH A 19 226 226 HOH HOH . 
D 4 HOH A 20 227 227 HOH HOH . 
D 4 HOH A 21 228 228 HOH HOH . 
D 4 HOH A 22 229 229 HOH HOH . 
D 4 HOH A 23 230 230 HOH HOH . 
D 4 HOH A 24 231 231 HOH HOH . 
D 4 HOH A 25 232 232 HOH HOH . 
D 4 HOH A 26 233 233 HOH HOH . 
D 4 HOH A 27 234 234 HOH HOH . 
D 4 HOH A 28 235 235 HOH HOH . 
D 4 HOH A 29 236 236 HOH HOH . 
D 4 HOH A 30 237 237 HOH HOH . 
D 4 HOH A 31 238 238 HOH HOH . 
D 4 HOH A 32 239 239 HOH HOH . 
D 4 HOH A 33 240 240 HOH HOH . 
D 4 HOH A 34 241 241 HOH HOH . 
D 4 HOH A 35 242 242 HOH HOH . 
D 4 HOH A 36 243 243 HOH HOH . 
D 4 HOH A 37 244 244 HOH HOH . 
D 4 HOH A 38 245 245 HOH HOH . 
D 4 HOH A 39 246 246 HOH HOH . 
D 4 HOH A 40 247 247 HOH HOH . 
D 4 HOH A 41 248 248 HOH HOH . 
D 4 HOH A 42 249 249 HOH HOH . 
D 4 HOH A 43 250 250 HOH HOH . 
D 4 HOH A 44 251 251 HOH HOH . 
D 4 HOH A 45 252 252 HOH HOH . 
D 4 HOH A 46 253 253 HOH HOH . 
D 4 HOH A 47 254 254 HOH HOH . 
D 4 HOH A 48 255 255 HOH HOH . 
D 4 HOH A 49 256 256 HOH HOH . 
D 4 HOH A 50 257 257 HOH HOH . 
D 4 HOH A 51 258 258 HOH HOH . 
D 4 HOH A 52 259 259 HOH HOH . 
D 4 HOH A 53 260 260 HOH HOH . 
D 4 HOH A 54 261 261 HOH HOH . 
D 4 HOH A 55 262 262 HOH HOH . 
D 4 HOH A 56 263 263 HOH HOH . 
D 4 HOH A 57 264 264 HOH HOH . 
D 4 HOH A 58 265 265 HOH HOH . 
D 4 HOH A 59 266 266 HOH HOH . 
D 4 HOH A 60 267 267 HOH HOH . 
D 4 HOH A 61 268 268 HOH HOH . 
D 4 HOH A 62 269 269 HOH HOH . 
D 4 HOH A 63 270 270 HOH HOH . 
D 4 HOH A 64 271 271 HOH HOH . 
D 4 HOH A 65 272 272 HOH HOH . 
D 4 HOH A 66 273 273 HOH HOH . 
D 4 HOH A 67 274 274 HOH HOH . 
D 4 HOH A 68 275 275 HOH HOH . 
D 4 HOH A 69 276 276 HOH HOH . 
D 4 HOH A 70 277 277 HOH HOH . 
D 4 HOH A 71 278 278 HOH HOH . 
D 4 HOH A 72 279 279 HOH HOH . 
D 4 HOH A 73 280 280 HOH HOH . 
D 4 HOH A 74 281 281 HOH HOH . 
D 4 HOH A 75 282 282 HOH HOH . 
D 4 HOH A 76 283 283 HOH HOH . 
D 4 HOH A 77 284 284 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 . . . B 2 15.643 9.381 23.298 1 23.56 ? PA NAP 207 A 1 
HETATM 2 O O1A NAP . . . B 2 15.554 9.727 21.811 1 21.01 ? O1A NAP 207 A 1 
HETATM 3 O O2A NAP . . . B 2 14.394 9.088 23.942 1 21.79 ? O2A NAP 207 A 1 
HETATM 4 O O5B NAP . . . B 2 16.332 10.827 23.838 1 23.36 ? O5B NAP 207 A 1 
HETATM 5 C C5B NAP . . . B 2 16.407 10.969 25.313 1 24.44 ? C5B NAP 207 A 1 
HETATM 6 C C4B NAP . . . B 2 16.413 12.518 25.465 1 26.79 ? C4B NAP 207 A 1 
HETATM 7 O O4B NAP . . . B 2 15.272 12.924 25.091 1 28.45 ? O4B NAP 207 A 1 
HETATM 8 C C3B NAP . . . B 2 16.435 12.805 27.07 1 27.74 ? C3B NAP 207 A 1 
HETATM 9 O O3B NAP . . . B 2 17.934 12.825 27.315 1 25.98 ? O3B NAP 207 A 1 
HETATM 10 C C2B NAP . . . B 2 15.739 14.175 26.99 1 27.19 ? C2B NAP 207 A 1 
HETATM 11 O O2B NAP . . . B 2 16.366 15.236 26.362 1 27.78 ? O2B NAP 207 A 1 
HETATM 12 C C1B NAP . . . B 2 14.576 13.749 26.023 1 28.48 ? C1B NAP 207 A 1 
HETATM 13 N N9A NAP . . . B 2 13.467 13.022 26.628 1 30.64 ? N9A NAP 207 A 1 
HETATM 14 C C8A NAP . . . B 2 13.079 11.76 26.252 1 30.5 ? C8A NAP 207 A 1 
HETATM 15 N N7A NAP . . . B 2 12.086 11.309 26.953 1 29.57 ? N7A NAP 207 A 1 
HETATM 16 C C5A NAP . . . B 2 11.821 12.449 27.81 1 31.36 ? C5A NAP 207 A 1 
HETATM 17 C C6A NAP . . . B 2 10.77 12.748 28.925 1 32.48 ? C6A NAP 207 A 1 
HETATM 18 N N6A NAP . . . B 2 9.852 11.814 29.243 1 33.18 ? N6A NAP 207 A 1 
HETATM 19 N N1A NAP . . . B 2 10.839 13.929 29.552 1 31.92 ? N1A NAP 207 A 1 
HETATM 20 C C2A NAP . . . B 2 11.802 14.759 29.127 1 31.15 ? C2A NAP 207 A 1 
HETATM 21 N N3A NAP . . . B 2 12.737 14.614 28.21 1 30.65 ? N3A NAP 207 A 1 
HETATM 22 C C4A NAP . . . B 2 12.684 13.417 27.596 1 30.58 ? C4A NAP 207 A 1 
HETATM 23 O O3 NAP . . . B 2 16.942 8.495 23.409 1 25.51 ? O3 NAP 207 A 1 
HETATM 24 P PN NAP . . . B 2 17.443 7.024 23.795 1 27.24 ? PN NAP 207 A 1 
HETATM 25 O O1N NAP . . . B 2 16.698 6.426 24.822 1 26.38 ? O1N NAP 207 A 1 
HETATM 26 O O2N NAP . . . B 2 18.87 7.028 24.084 1 26.4 ? O2N NAP 207 A 1 
HETATM 27 O O5D NAP . . . B 2 17.268 6.233 22.417 1 24.91 ? O5D NAP 207 A 1 
HETATM 28 C C5D NAP . . . B 2 17.97 6.662 21.285 1 23.52 ? C5D NAP 207 A 1 
HETATM 29 C C4D NAP . . . B 2 18.307 5.321 20.643 1 23.63 ? C4D NAP 207 A 1 
HETATM 30 O O4D NAP . . . B 2 17.017 4.769 20.104 1 24.48 ? O4D NAP 207 A 1 
HETATM 31 C C3D NAP . . . B 2 19.291 5.576 19.452 1 23.51 ? C3D NAP 207 A 1 
HETATM 32 O O3D NAP . . . B 2 20.179 4.438 19.414 1 26.02 ? O3D NAP 207 A 1 
HETATM 33 C C2D NAP . . . B 2 18.272 5.603 18.265 1 23.83 ? C2D NAP 207 A 1 
HETATM 34 O O2D NAP . . . B 2 19.042 5.095 17.195 1 25.99 ? O2D NAP 207 A 1 
HETATM 35 C C1D NAP . . . B 2 17.278 4.537 18.687 1 22.87 ? C1D NAP 207 A 1 
HETATM 36 N N1N NAP . . . B 2 15.898 4.486 18.018 1 21.72 ? N1N NAP 207 A 1 
HETATM 37 C C2N NAP . . . B 2 15.426 3.308 17.41 1 20.04 ? C2N NAP 207 A 1 
HETATM 38 C C3N NAP . . . B 2 14.187 3.326 16.862 1 18.52 ? C3N NAP 207 A 1 
HETATM 39 C C7N NAP . . . B 2 13.694 2.062 16.238 1 17.09 ? C7N NAP 207 A 1 
HETATM 40 O O7N NAP . . . B 2 12.592 2.216 15.824 1 12.75 ? O7N NAP 207 A 1 
HETATM 41 N N7N NAP . . . B 2 14.591 1.014 16.281 1 17.91 ? N7N NAP 207 A 1 
HETATM 42 C C4N NAP . . . B 2 13.263 4.554 16.802 1 19.16 ? C4N NAP 207 A 1 
HETATM 43 C C5N NAP . . . B 2 13.958 5.713 17.44 1 20.92 ? C5N NAP 207 A 1 
HETATM 44 C C6N NAP . . . B 2 15.148 5.671 18.002 1 20.2 ? C6N NAP 207 A 1 
HETATM 45 P P2B NAP . . . B 2 17.494 16.247 27.249 1 28.63 ? P2B NAP 207 A 1 
HETATM 46 O O1X NAP . . . B 2 16.452 16.82 28.217 1 28.97 ? O1X NAP 207 A 1 
HETATM 47 O O2X NAP . . . B 2 17.995 17.071 26.187 1 25.3 ? O2X NAP 207 A 1 
HETATM 48 O O3X NAP . . . B 2 18.266 15.313 28.106 1 29.59 ? O3X NAP 207 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           48 
#