data_4PZD
#
_model_server_result.job_id            lSE1xvgtOd0WsmIp53b7pQ 
_model_server_result.datetime_utc      '2025-02-05 04:05:40' 
_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          4pzd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":301}' 
#
_entry.id    4PZD 
#
_exptl.entry_id    4PZD 
_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    9 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.09 
_cell.angle_gamma         90 
_cell.entry_id            4PZD 
_cell.length_a            235.076 
_cell.length_b            135.586 
_cell.length_c            97.445 
_cell.Z_PDB               36 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PZD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 software_defined_assembly 4 
PISA dimeric 2 author_and_software_defined_assembly 5 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,J,S 1 1,2 
B,C,K,L,T,U 2 1 
D,G,M,P,V,Y 3 1 
E,F,N,O,W,X 4 1 
H,I,Q,R,Z,AA 5 1 
#
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_554 -x,y,-z-1 -1 0 0 0 1 0 0 0 -1 0.153066 0 -97.44488 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 J N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 O N N 
? 2 P N N 
? 2 Q N N 
? 2 R 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 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                     4PZD 
_atom_sites.fract_transf_matrix[1][1]    0.004254 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000006 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007375 
_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]    0.010262 
_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
J 2 NAD A 1 301 1 NAD NAD . 
K 2 NAD B 1 301 2 NAD NAD . 
L 2 NAD C 1 301 3 NAD NAD . 
M 2 NAD D 1 301 4 NAD NAD . 
N 2 NAD E 1 301 5 NAD NAD . 
O 2 NAD F 1 301 6 NAD NAD . 
P 2 NAD G 1 301 7 NAD NAD . 
Q 2 NAD H 1 301 8 NAD NAD . 
R 2 NAD I 1 301 9 NAD NAD . 
S 3 HOH A 1 401 9 HOH HOH . 
S 3 HOH A 2 402 10 HOH HOH . 
S 3 HOH A 3 403 17 HOH HOH . 
S 3 HOH A 4 404 18 HOH HOH . 
S 3 HOH A 5 405 46 HOH HOH . 
S 3 HOH A 6 406 70 HOH HOH . 
S 3 HOH A 7 407 86 HOH HOH . 
S 3 HOH A 8 408 95 HOH HOH . 
S 3 HOH A 9 409 96 HOH HOH . 
S 3 HOH A 10 410 98 HOH HOH . 
T 3 HOH B 1 401 11 HOH HOH . 
T 3 HOH B 2 402 15 HOH HOH . 
T 3 HOH B 3 403 19 HOH HOH . 
T 3 HOH B 4 404 32 HOH HOH . 
T 3 HOH B 5 405 38 HOH HOH . 
T 3 HOH B 6 406 42 HOH HOH . 
T 3 HOH B 7 407 54 HOH HOH . 
T 3 HOH B 8 408 62 HOH HOH . 
T 3 HOH B 9 409 92 HOH HOH . 
T 3 HOH B 10 410 93 HOH HOH . 
U 3 HOH C 1 401 5 HOH HOH . 
U 3 HOH C 2 402 22 HOH HOH . 
U 3 HOH C 3 403 24 HOH HOH . 
U 3 HOH C 4 404 25 HOH HOH . 
U 3 HOH C 5 405 26 HOH HOH . 
U 3 HOH C 6 406 34 HOH HOH . 
U 3 HOH C 7 407 35 HOH HOH . 
U 3 HOH C 8 408 45 HOH HOH . 
U 3 HOH C 9 409 51 HOH HOH . 
U 3 HOH C 10 410 57 HOH HOH . 
U 3 HOH C 11 411 60 HOH HOH . 
U 3 HOH C 12 412 75 HOH HOH . 
U 3 HOH C 13 413 77 HOH HOH . 
U 3 HOH C 14 414 80 HOH HOH . 
U 3 HOH C 15 415 85 HOH HOH . 
U 3 HOH C 16 416 88 HOH HOH . 
U 3 HOH C 17 417 97 HOH HOH . 
V 3 HOH D 1 401 3 HOH HOH . 
V 3 HOH D 2 402 16 HOH HOH . 
V 3 HOH D 3 403 21 HOH HOH . 
V 3 HOH D 4 404 67 HOH HOH . 
V 3 HOH D 5 405 83 HOH HOH . 
V 3 HOH D 6 406 94 HOH HOH . 
W 3 HOH E 1 401 14 HOH HOH . 
W 3 HOH E 2 402 27 HOH HOH . 
W 3 HOH E 3 403 31 HOH HOH . 
W 3 HOH E 4 404 43 HOH HOH . 
W 3 HOH E 5 405 50 HOH HOH . 
W 3 HOH E 6 406 52 HOH HOH . 
W 3 HOH E 7 407 65 HOH HOH . 
W 3 HOH E 8 408 66 HOH HOH . 
W 3 HOH E 9 409 69 HOH HOH . 
W 3 HOH E 10 410 73 HOH HOH . 
W 3 HOH E 11 411 82 HOH HOH . 
W 3 HOH E 12 412 90 HOH HOH . 
W 3 HOH E 13 413 99 HOH HOH . 
W 3 HOH E 14 414 100 HOH HOH . 
X 3 HOH F 1 401 8 HOH HOH . 
X 3 HOH F 2 402 12 HOH HOH . 
X 3 HOH F 3 403 13 HOH HOH . 
X 3 HOH F 4 404 20 HOH HOH . 
X 3 HOH F 5 405 28 HOH HOH . 
X 3 HOH F 6 406 33 HOH HOH . 
X 3 HOH F 7 407 47 HOH HOH . 
X 3 HOH F 8 408 56 HOH HOH . 
X 3 HOH F 9 409 63 HOH HOH . 
X 3 HOH F 10 410 64 HOH HOH . 
X 3 HOH F 11 411 68 HOH HOH . 
X 3 HOH F 12 412 71 HOH HOH . 
X 3 HOH F 13 413 74 HOH HOH . 
X 3 HOH F 14 414 78 HOH HOH . 
X 3 HOH F 15 415 79 HOH HOH . 
X 3 HOH F 16 416 87 HOH HOH . 
X 3 HOH F 17 417 89 HOH HOH . 
Y 3 HOH G 1 401 2 HOH HOH . 
Y 3 HOH G 2 402 7 HOH HOH . 
Y 3 HOH G 3 403 30 HOH HOH . 
Y 3 HOH G 4 404 41 HOH HOH . 
Y 3 HOH G 5 405 48 HOH HOH . 
Y 3 HOH G 6 406 76 HOH HOH . 
Y 3 HOH G 7 407 81 HOH HOH . 
Z 3 HOH H 1 401 4 HOH HOH . 
Z 3 HOH H 2 402 36 HOH HOH . 
Z 3 HOH H 3 403 37 HOH HOH . 
Z 3 HOH H 4 404 40 HOH HOH . 
Z 3 HOH H 5 405 44 HOH HOH . 
Z 3 HOH H 6 406 59 HOH HOH . 
Z 3 HOH H 7 407 61 HOH HOH . 
Z 3 HOH H 8 408 72 HOH HOH . 
Z 3 HOH H 9 409 91 HOH HOH . 
AA 3 HOH I 1 401 1 HOH HOH . 
AA 3 HOH I 2 402 6 HOH HOH . 
AA 3 HOH I 3 403 23 HOH HOH . 
AA 3 HOH I 4 404 29 HOH HOH . 
AA 3 HOH I 5 405 39 HOH HOH . 
AA 3 HOH I 6 406 49 HOH HOH . 
AA 3 HOH I 7 407 53 HOH HOH . 
AA 3 HOH I 8 408 55 HOH HOH . 
AA 3 HOH I 9 409 58 HOH HOH . 
AA 3 HOH I 10 410 84 HOH HOH . 
AA 3 HOH I 11 411 101 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 . . . Q 2 3.998 -125.63 14.247 1 154.48 ? PA NAD 301 H 1 
HETATM 2 O O1A NAD . . . Q 2 4.413 -126.949 13.641 1 140.06 ? O1A NAD 301 H 1 
HETATM 3 O O2A NAD . . . Q 2 2.858 -124.878 13.602 1 159.36 ? O2A NAD 301 H 1 
HETATM 4 O O5B NAD . . . Q 2 5.311 -124.679 14.312 1 144.17 ? O5B NAD 301 H 1 
HETATM 5 C C5B NAD . . . Q 2 6.648 -125.197 14.255 1 137.48 ? C5B NAD 301 H 1 
HETATM 6 C C4B NAD . . . Q 2 7.604 -124.2 13.599 1 135.14 ? C4B NAD 301 H 1 
HETATM 7 O O4B NAD . . . Q 2 8.8 -124.037 14.385 1 135.67 ? O4B NAD 301 H 1 
HETATM 8 C C3B NAD . . . Q 2 8.064 -124.62 12.197 1 135.69 ? C3B NAD 301 H 1 
HETATM 9 O O3B NAD . . . Q 2 7.571 -123.691 11.219 1 119.53 ? O3B NAD 301 H 1 
HETATM 10 C C2B NAD . . . Q 2 9.594 -124.622 12.26 1 134.87 ? C2B NAD 301 H 1 
HETATM 11 O O2B NAD . . . Q 2 10.202 -124.128 11.053 1 119.26 ? O2B NAD 301 H 1 
HETATM 12 C C1B NAD . . . Q 2 9.889 -123.751 13.486 1 129.68 ? C1B NAD 301 H 1 
HETATM 13 N N9A NAD . . . Q 2 11.266 -123.943 14.055 1 110.64 ? N9A NAD 301 H 1 
HETATM 14 C C8A NAD . . . Q 2 11.854 -125.084 14.486 1 102.42 ? C8A NAD 301 H 1 
HETATM 15 N N7A NAD . . . Q 2 13.125 -124.828 14.922 1 96.05 ? N7A NAD 301 H 1 
HETATM 16 C C5A NAD . . . Q 2 13.38 -123.509 14.772 1 93.89 ? C5A NAD 301 H 1 
HETATM 17 C C6A NAD . . . Q 2 14.512 -122.563 15.024 1 101.61 ? C6A NAD 301 H 1 
HETATM 18 N N6A NAD . . . Q 2 15.699 -122.973 15.548 1 107.67 ? N6A NAD 301 H 1 
HETATM 19 N N1A NAD . . . Q 2 14.339 -121.252 14.717 1 94.57 ? N1A NAD 301 H 1 
HETATM 20 C C2A NAD . . . Q 2 13.182 -120.803 14.197 1 97.06 ? C2A NAD 301 H 1 
HETATM 21 N N3A NAD . . . Q 2 12.117 -121.602 13.945 1 95.18 ? N3A NAD 301 H 1 
HETATM 22 C C4A NAD . . . Q 2 12.146 -122.936 14.202 1 103.8 ? C4A NAD 301 H 1 
HETATM 23 O O3 NAD . . . Q 2 3.551 -125.899 15.783 1 151.52 ? O3 NAD 301 H 1 
HETATM 24 P PN NAD . . . Q 2 2.756 -124.847 16.729 1 143.05 ? PN NAD 301 H 1 
HETATM 25 O O1N NAD . . . Q 2 1.451 -125.463 17.201 1 121.08 ? O1N NAD 301 H 1 
HETATM 26 O O2N NAD . . . Q 2 2.752 -123.478 16.074 1 132.38 ? O2N NAD 301 H 1 
HETATM 27 O O5D NAD . . . Q 2 3.759 -124.821 17.994 1 125.95 ? O5D NAD 301 H 1 
HETATM 28 C C5D NAD . . . Q 2 4.652 -123.739 18.248 1 123.78 ? C5D NAD 301 H 1 
HETATM 29 C C4D NAD . . . Q 2 4.844 -123.587 19.747 1 126.91 ? C4D NAD 301 H 1 
HETATM 30 O O4D NAD . . . Q 2 3.769 -122.88 20.366 1 140.04 ? O4D NAD 301 H 1 
HETATM 31 C C3D NAD . . . Q 2 4.837 -124.917 20.453 1 137.33 ? C3D NAD 301 H 1 
HETATM 32 O O3D NAD . . . Q 2 6.139 -125.462 20.373 1 156.96 ? O3D NAD 301 H 1 
HETATM 33 C C2D NAD . . . Q 2 4.376 -124.572 21.85 1 131.07 ? C2D NAD 301 H 1 
HETATM 34 O O2D NAD . . . Q 2 5.453 -124.063 22.637 1 121.27 ? O2D NAD 301 H 1 
HETATM 35 C C1D NAD . . . Q 2 3.417 -123.432 21.655 1 138.29 ? C1D NAD 301 H 1 
HETATM 36 N N1N NAD . . . Q 2 1.997 -123.861 21.787 1 140.46 ? N1N NAD 301 H 1 
HETATM 37 C C2N NAD . . . Q 2 1.496 -124.83 20.997 1 132.06 ? C2N NAD 301 H 1 
HETATM 38 C C3N NAD . . . Q 2 0.164 -125.238 21.117 1 131.15 ? C3N NAD 301 H 1 
HETATM 39 C C7N NAD . . . Q 2 -0.374 -126.305 20.209 1 118.54 ? C7N NAD 301 H 1 
HETATM 40 O O7N NAD . . . Q 2 -1.546 -126.241 19.899 1 113.78 ? O7N NAD 301 H 1 
HETATM 41 N N7N NAD . . . Q 2 0.41 -127.278 19.748 1 111.31 ? N7N NAD 301 H 1 
HETATM 42 C C4N NAD . . . Q 2 -0.671 -124.637 22.067 1 127.5 ? C4N NAD 301 H 1 
HETATM 43 C C5N NAD . . . Q 2 -0.141 -123.641 22.878 1 132.73 ? C5N NAD 301 H 1 
HETATM 44 C C6N NAD . . . Q 2 1.2 -123.273 22.718 1 138.55 ? C6N NAD 301 H 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           44 
#