data_8YLT
#
_model_server_result.job_id            ahnL9fPr3ZfoNfGHqb2BZA 
_model_server_result.datetime_utc      '2024-10-14 04:22:22' 
_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          8ylt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1101}' 
#
_entry.id    8YLT 
#
_exptl.entry_id    8YLT 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_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    4 
_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            8YLT 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YLT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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    ? 
_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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N 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 235 n n 
PA O2A NAD sing 236 n n 
PA O5B NAD sing 237 n n 
PA O3 NAD sing 238 n n 
O2A HOA2 NAD sing 239 n n 
O5B C5B NAD sing 240 n n 
C5B C4B NAD sing 241 n n 
C5B H51A NAD sing 242 n n 
C5B H52A NAD sing 243 n n 
C4B O4B NAD sing 244 n n 
C4B C3B NAD sing 245 n n 
C4B H4B NAD sing 246 n n 
O4B C1B NAD sing 247 n n 
C3B O3B NAD sing 248 n n 
C3B C2B NAD sing 249 n n 
C3B H3B NAD sing 250 n n 
O3B HO3A NAD sing 251 n n 
C2B O2B NAD sing 252 n n 
C2B C1B NAD sing 253 n n 
C2B H2B NAD sing 254 n n 
O2B HO2A NAD sing 255 n n 
C1B N9A NAD sing 256 n n 
C1B H1B NAD sing 257 n n 
N9A C8A NAD sing 258 n y 
N9A C4A NAD sing 259 n y 
C8A N7A NAD doub 260 n y 
C8A H8A NAD sing 261 n n 
N7A C5A NAD sing 262 n y 
C5A C6A NAD sing 263 n y 
C5A C4A NAD doub 264 n y 
C6A N6A NAD sing 265 n n 
C6A N1A NAD doub 266 n y 
N6A H61A NAD sing 267 n n 
N6A H62A NAD sing 268 n n 
N1A C2A NAD sing 269 n y 
C2A N3A NAD doub 270 n y 
C2A H2A NAD sing 271 n n 
N3A C4A NAD sing 272 n y 
O3 PN NAD sing 273 n n 
PN O1N NAD doub 274 n n 
PN O2N NAD sing 275 n n 
PN O5D NAD sing 276 n n 
O5D C5D NAD sing 277 n n 
C5D C4D NAD sing 278 n n 
C5D H51N NAD sing 279 n n 
C5D H52N NAD sing 280 n n 
C4D O4D NAD sing 281 n n 
C4D C3D NAD sing 282 n n 
C4D H4D NAD sing 283 n n 
O4D C1D NAD sing 284 n n 
C3D O3D NAD sing 285 n n 
C3D C2D NAD sing 286 n n 
C3D H3D NAD sing 287 n n 
O3D HO3N NAD sing 288 n n 
C2D O2D NAD sing 289 n n 
C2D C1D NAD sing 290 n n 
C2D H2D NAD sing 291 n n 
O2D HO2N NAD sing 292 n n 
C1D N1N NAD sing 293 n n 
C1D H1D NAD sing 294 n n 
N1N C2N NAD sing 295 n y 
N1N C6N NAD doub 296 n y 
C2N C3N NAD doub 297 n y 
C2N H2N NAD sing 298 n n 
C3N C7N NAD sing 299 n n 
C3N C4N NAD sing 300 n y 
C7N O7N NAD doub 301 n n 
C7N N7N NAD sing 302 n n 
N7N H71N NAD sing 303 n n 
N7N H72N NAD sing 304 n n 
C4N C5N NAD doub 305 n y 
C4N H4N NAD sing 306 n n 
C5N C6N NAD sing 307 n y 
C5N H5N NAD sing 308 n n 
C6N H6N NAD sing 309 n n 
#
_atom_sites.entry_id                     8YLT 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
E 2 NAD A 1 1101 1110 NAD NAD . 
F 2 NAD B 1 1101 1110 NAD NAD . 
G 2 NAD C 1 1101 1110 NAD NAD . 
H 2 NAD D 1 1101 1110 NAD NAD . 
#
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 . . . F 2 229.646 250.07 250.583 1 98.52 ? PA NAD 1101 B 1 
HETATM 2 O O1A NAD . . . F 2 230.811 251.018 250.61 1 97.02 ? O1A NAD 1101 B 1 
HETATM 3 O O2A NAD . . . F 2 229.756 248.749 251.3 1 100.71 ? O2A NAD 1101 B 1 
HETATM 4 O O5B NAD . . . F 2 229.232 249.824 249.053 1 95.23 ? O5B NAD 1101 B 1 
HETATM 5 C C5B NAD . . . F 2 229.425 248.591 248.37 1 91.29 ? C5B NAD 1101 B 1 
HETATM 6 C C4B NAD . . . F 2 230.288 248.887 247.167 1 90.07 ? C4B NAD 1101 B 1 
HETATM 7 O O4B NAD . . . F 2 229.705 249.975 246.462 1 91.47 ? O4B NAD 1101 B 1 
HETATM 8 C C3B NAD . . . F 2 231.686 249.276 247.585 1 90.74 ? C3B NAD 1101 B 1 
HETATM 9 O O3B NAD . . . F 2 232.674 248.565 246.837 1 88.77 ? O3B NAD 1101 B 1 
HETATM 10 C C2B NAD . . . F 2 231.767 250.741 247.288 1 91.73 ? C2B NAD 1101 B 1 
HETATM 11 O O2B NAD . . . F 2 233.048 251.044 246.779 1 90.41 ? O2B NAD 1101 B 1 
HETATM 12 C C1B NAD . . . F 2 230.679 250.992 246.255 1 92.09 ? C1B NAD 1101 B 1 
HETATM 13 N N9A NAD . . . F 2 230.067 252.339 246.379 1 94.24 ? N9A NAD 1101 B 1 
HETATM 14 C C8A NAD . . . F 2 229.911 253.081 247.489 1 96.12 ? C8A NAD 1101 B 1 
HETATM 15 N N7A NAD . . . F 2 229.322 254.26 247.192 1 98.2 ? N7A NAD 1101 B 1 
HETATM 16 C C5A NAD . . . F 2 229.098 254.28 245.875 1 96.18 ? C5A NAD 1101 B 1 
HETATM 17 C C6A NAD . . . F 2 228.505 255.226 244.918 1 96.09 ? C6A NAD 1101 B 1 
HETATM 18 N N6A NAD . . . F 2 228.029 256.413 245.346 1 97.04 ? N6A NAD 1101 B 1 
HETATM 19 N N1A NAD . . . F 2 228.459 254.861 243.622 1 95.14 ? N1A NAD 1101 B 1 
HETATM 20 C C2A NAD . . . F 2 228.934 253.677 243.202 1 93.98 ? C2A NAD 1101 B 1 
HETATM 21 N N3A NAD . . . F 2 229.481 252.775 244.025 1 93.78 ? N3A NAD 1101 B 1 
HETATM 22 C C4A NAD . . . F 2 229.585 253.014 245.345 1 94.54 ? C4A NAD 1101 B 1 
HETATM 23 O O3 NAD . . . F 2 228.332 250.829 251.106 1 101.19 ? O3 NAD 1101 B 1 
HETATM 24 P PN NAD . . . F 2 228.331 251.782 252.4 1 105.64 ? PN NAD 1101 B 1 
HETATM 25 O O1N NAD . . . F 2 229.742 251.977 252.897 1 107.44 ? O1N NAD 1101 B 1 
HETATM 26 O O2N NAD . . . F 2 227.263 251.283 253.342 1 106.13 ? O2N NAD 1101 B 1 
HETATM 27 O O5D NAD . . . F 2 227.82 253.169 251.77 1 107.84 ? O5D NAD 1101 B 1 
HETATM 28 C C5D NAD . . . F 2 228.338 253.597 250.515 1 107.58 ? C5D NAD 1101 B 1 
HETATM 29 C C4D NAD . . . F 2 228.147 255.096 250.353 1 109.45 ? C4D NAD 1101 B 1 
HETATM 30 O O4D NAD . . . F 2 226.857 255.504 250.812 1 112.11 ? O4D NAD 1101 B 1 
HETATM 31 C C3D NAD . . . F 2 229.175 255.873 251.154 1 110.11 ? C3D NAD 1101 B 1 
HETATM 32 O O3D NAD . . . F 2 230.243 256.318 250.32 1 109.44 ? O3D NAD 1101 B 1 
HETATM 33 C C2D NAD . . . F 2 228.423 257.038 251.754 1 111.79 ? C2D NAD 1101 B 1 
HETATM 34 O O2D NAD . . . F 2 228.85 258.277 251.189 1 112.14 ? O2D NAD 1101 B 1 
HETATM 35 C C1D NAD . . . F 2 226.956 256.786 251.44 1 113.02 ? C1D NAD 1101 B 1 
HETATM 36 N N1N NAD . . . F 2 226.183 256.823 252.678 1 115.8 ? N1N NAD 1101 B 1 
HETATM 37 C C2N NAD . . . F 2 226.386 255.874 253.594 1 118.01 ? C2N NAD 1101 B 1 
HETATM 38 C C3N NAD . . . F 2 225.681 255.871 254.787 1 122 ? C3N NAD 1101 B 1 
HETATM 39 C C7N NAD . . . F 2 225.956 254.78 255.782 1 126.21 ? C7N NAD 1101 B 1 
HETATM 40 O O7N NAD . . . F 2 226.677 253.851 255.46 1 127.81 ? O7N NAD 1101 B 1 
HETATM 41 N N7N NAD . . . F 2 225.433 254.828 257.002 1 128.45 ? N7N NAD 1101 B 1 
HETATM 42 C C4N NAD . . . F 2 224.748 256.876 255.014 1 122.95 ? C4N NAD 1101 B 1 
HETATM 43 C C5N NAD . . . F 2 224.559 257.848 254.047 1 119.72 ? C5N NAD 1101 B 1 
HETATM 44 C C6N NAD . . . F 2 225.296 257.799 252.873 1 116.54 ? C6N NAD 1101 B 1 
HETATM 45 H H51A NAD . . . F 2 229.917 247.853 249.001 1 91.29 ? H51A NAD 1101 B 1 
HETATM 46 H H52A NAD . . . F 2 228.459 248.196 248.054 1 91.29 ? H52A NAD 1101 B 1 
HETATM 47 H H4B NAD . . . F 2 230.366 248.016 246.516 1 90.07 ? H4B NAD 1101 B 1 
HETATM 48 H H3B NAD . . . F 2 231.818 249.103 248.661 1 90.74 ? H3B NAD 1101 B 1 
HETATM 49 H HO3A NAD . . . F 2 233.527 249.015 246.919 1 90.74 ? HO3A NAD 1101 B 1 
HETATM 50 H H2B NAD . . . F 2 231.588 251.298 248.212 1 91.73 ? H2B NAD 1101 B 1 
HETATM 51 H HO2A NAD . . . F 2 232.97 251.374 245.875 1 91.73 ? HO2A NAD 1101 B 1 
HETATM 52 H H1B NAD . . . F 2 231.116 250.882 245.254 1 92.09 ? H1B NAD 1101 B 1 
HETATM 53 H H8A NAD . . . F 2 230.212 252.783 248.485 1 96.12 ? H8A NAD 1101 B 1 
HETATM 54 H H61A NAD . . . F 2 228.081 256.65 246.327 1 97.04 ? H61A NAD 1101 B 1 
HETATM 55 H H62A NAD . . . F 2 227.622 257.062 244.688 1 97.04 ? H62A NAD 1101 B 1 
HETATM 56 H H2A NAD . . . F 2 228.874 253.438 242.154 1 93.98 ? H2A NAD 1101 B 1 
HETATM 57 H H51N NAD . . . F 2 229.403 253.367 250.464 1 107.58 ? H51N NAD 1101 B 1 
HETATM 58 H H52N NAD . . . F 2 227.838 253.067 249.702 1 107.58 ? H52N NAD 1101 B 1 
HETATM 59 H H4D NAD . . . F 2 228.259 255.356 249.293 1 109.45 ? H4D NAD 1101 B 1 
HETATM 60 H H3D NAD . . . F 2 229.558 255.235 251.963 1 110.11 ? H3D NAD 1101 B 1 
HETATM 61 H HO3N NAD . . . F 2 230.813 256.916 250.822 1 110.11 ? HO3N NAD 1101 B 1 
HETATM 62 H H2D NAD . . . F 2 228.584 257.05 252.84 1 111.79 ? H2D NAD 1101 B 1 
HETATM 63 H HO2N NAD . . . F 2 229.653 258.572 251.639 1 111.79 ? HO2N NAD 1101 B 1 
HETATM 64 H H1D NAD . . . F 2 226.601 257.565 250.753 1 113.02 ? H1D NAD 1101 B 1 
HETATM 65 H H2N NAD . . . F 2 227.121 255.106 253.397 1 118.01 ? H2N NAD 1101 B 1 
HETATM 66 H H71N NAD . . . F 2 224.842 255.595 257.273 1 128.45 ? H71N NAD 1101 B 1 
HETATM 67 H H72N NAD . . . F 2 225.628 254.09 257.662 1 128.45 ? H72N NAD 1101 B 1 
HETATM 68 H H4N NAD . . . F 2 224.173 256.912 255.928 1 122.95 ? H4N NAD 1101 B 1 
HETATM 69 H H5N NAD . . . F 2 223.835 258.637 254.203 1 119.72 ? H5N NAD 1101 B 1 
HETATM 70 H H6N NAD . . . F 2 225.149 258.554 252.112 1 116.54 ? H6N NAD 1101 B 1 
#
_model_server_stats.io_time_ms              32 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    55 
_model_server_stats.query_time_ms           290 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           70 
#