data_2DBR
#
_model_server_result.job_id            ybLdDBigAfiCMPvrDjkt2A 
_model_server_result.datetime_utc      '2024-11-22 21:04:37' 
_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          2dbr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"U","auth_seq_id":405}' 
#
_entry.id    2DBR 
#
_exptl.entry_id    2DBR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         113.76 
_cell.angle_beta          91.17 
_cell.angle_gamma         94 
_cell.entry_id            2DBR 
_cell.length_a            68.052 
_cell.length_b            85.443 
_cell.length_c            107.132 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2DBR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,G,H,I,J,K,L,Y,Z 1 1 
C,D,M,N,O,P,Q,R,AA,BA 2 1 
E,F,S,T,U,V,W,X,CA,DA 3 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 I N N 
? 3 L N N 
? 3 O N N 
? 3 R N N 
? 3 U N N 
? 3 X N 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 224 n n 
PA O2A NAP sing 225 n n 
PA O5B NAP sing 226 n n 
PA O3 NAP sing 227 n n 
O2A HOA2 NAP sing 228 n n 
O5B C5B NAP sing 229 n n 
C5B C4B NAP sing 230 n n 
C5B H51A NAP sing 231 n n 
C5B H52A NAP sing 232 n n 
C4B O4B NAP sing 233 n n 
C4B C3B NAP sing 234 n n 
C4B H4B NAP sing 235 n n 
O4B C1B NAP sing 236 n n 
C3B O3B NAP sing 237 n n 
C3B C2B NAP sing 238 n n 
C3B H3B NAP sing 239 n n 
O3B HO3A NAP sing 240 n n 
C2B O2B NAP sing 241 n n 
C2B C1B NAP sing 242 n n 
C2B H2B NAP sing 243 n n 
O2B P2B NAP sing 244 n n 
C1B N9A NAP sing 245 n n 
C1B H1B NAP sing 246 n n 
N9A C8A NAP sing 247 n y 
N9A C4A NAP sing 248 n y 
C8A N7A NAP doub 249 n y 
C8A H8A NAP sing 250 n n 
N7A C5A NAP sing 251 n y 
C5A C6A NAP sing 252 n y 
C5A C4A NAP doub 253 n y 
C6A N6A NAP sing 254 n n 
C6A N1A NAP doub 255 n y 
N6A H61A NAP sing 256 n n 
N6A H62A NAP sing 257 n n 
N1A C2A NAP sing 258 n y 
C2A N3A NAP doub 259 n y 
C2A H2A NAP sing 260 n n 
N3A C4A NAP sing 261 n y 
O3 PN NAP sing 262 n n 
PN O1N NAP doub 263 n n 
PN O2N NAP sing 264 n n 
PN O5D NAP sing 265 n n 
O5D C5D NAP sing 266 n n 
C5D C4D NAP sing 267 n n 
C5D H51N NAP sing 268 n n 
C5D H52N NAP sing 269 n n 
C4D O4D NAP sing 270 n n 
C4D C3D NAP sing 271 n n 
C4D H4D NAP sing 272 n n 
O4D C1D NAP sing 273 n n 
C3D O3D NAP sing 274 n n 
C3D C2D NAP sing 275 n n 
C3D H3D NAP sing 276 n n 
O3D HO3N NAP sing 277 n n 
C2D O2D NAP sing 278 n n 
C2D C1D NAP sing 279 n n 
C2D H2D NAP sing 280 n n 
O2D HO2N NAP sing 281 n n 
C1D N1N NAP sing 282 n n 
C1D H1D NAP sing 283 n n 
N1N C2N NAP sing 284 n y 
N1N C6N NAP doub 285 n y 
C2N C3N NAP doub 286 n y 
C2N H2N NAP sing 287 n n 
C3N C7N NAP sing 288 n n 
C3N C4N NAP sing 289 n y 
C7N O7N NAP doub 290 n n 
C7N N7N NAP sing 291 n n 
N7N H71N NAP sing 292 n n 
N7N H72N NAP sing 293 n n 
C4N C5N NAP doub 294 n y 
C4N H4N NAP sing 295 n n 
C5N C6N NAP sing 296 n y 
C5N H5N NAP sing 297 n n 
C6N H6N NAP sing 298 n n 
P2B O1X NAP doub 299 n n 
P2B O2X NAP sing 300 n n 
P2B O3X NAP sing 301 n n 
O2X HOP2 NAP sing 302 n n 
O3X HOP3 NAP sing 303 n n 
#
_atom_sites.entry_id                     2DBR 
_atom_sites.fract_transf_matrix[1][1]    0.014695 
_atom_sites.fract_transf_matrix[1][2]    0.001028 
_atom_sites.fract_transf_matrix[1][3]    0.000784 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011732 
_atom_sites.fract_transf_matrix[2][3]    0.005203 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.010213 
_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
G 2 SO4 A 1 501 501 SO4 SO4 . 
H 2 SO4 A 1 507 507 SO4 SO4 . 
I 3 NAP A 1 401 401 NAP NAP . 
J 2 SO4 B 1 503 503 SO4 SO4 . 
K 2 SO4 B 1 509 509 SO4 SO4 . 
L 3 NAP B 1 402 402 NAP NAP . 
M 2 SO4 C 1 502 502 SO4 SO4 . 
N 2 SO4 C 1 508 508 SO4 SO4 . 
O 3 NAP C 1 403 403 NAP NAP . 
P 2 SO4 D 1 504 504 SO4 SO4 . 
Q 2 SO4 D 1 510 510 SO4 SO4 . 
R 3 NAP D 1 404 404 NAP NAP . 
S 2 SO4 E 1 505 505 SO4 SO4 . 
T 2 SO4 E 1 511 511 SO4 SO4 . 
U 3 NAP E 1 405 405 NAP NAP . 
V 2 SO4 F 1 506 506 SO4 SO4 . 
W 2 SO4 F 1 512 512 SO4 SO4 . 
X 3 NAP F 1 406 406 NAP NAP . 
Y 4 HOH A 1 508 1 HOH HOH . 
Y 4 HOH A 2 509 4 HOH HOH . 
Y 4 HOH A 3 510 13 HOH HOH . 
Y 4 HOH A 4 511 21 HOH HOH . 
Y 4 HOH A 5 512 22 HOH HOH . 
Y 4 HOH A 6 513 24 HOH HOH . 
Y 4 HOH A 7 514 31 HOH HOH . 
Y 4 HOH A 8 515 37 HOH HOH . 
Y 4 HOH A 9 516 57 HOH HOH . 
Y 4 HOH A 10 517 65 HOH HOH . 
Y 4 HOH A 11 518 67 HOH HOH . 
Z 4 HOH B 1 510 9 HOH HOH . 
Z 4 HOH B 2 511 11 HOH HOH . 
Z 4 HOH B 3 512 14 HOH HOH . 
Z 4 HOH B 4 513 16 HOH HOH . 
Z 4 HOH B 5 514 17 HOH HOH . 
Z 4 HOH B 6 515 18 HOH HOH . 
Z 4 HOH B 7 516 28 HOH HOH . 
Z 4 HOH B 8 517 30 HOH HOH . 
Z 4 HOH B 9 518 32 HOH HOH . 
Z 4 HOH B 10 519 34 HOH HOH . 
Z 4 HOH B 11 520 40 HOH HOH . 
Z 4 HOH B 12 521 41 HOH HOH . 
Z 4 HOH B 13 522 43 HOH HOH . 
Z 4 HOH B 14 523 45 HOH HOH . 
Z 4 HOH B 15 524 46 HOH HOH . 
Z 4 HOH B 16 525 49 HOH HOH . 
Z 4 HOH B 17 526 52 HOH HOH . 
Z 4 HOH B 18 527 54 HOH HOH . 
Z 4 HOH B 19 528 55 HOH HOH . 
Z 4 HOH B 20 529 56 HOH HOH . 
Z 4 HOH B 21 530 59 HOH HOH . 
Z 4 HOH B 22 531 76 HOH HOH . 
AA 4 HOH C 1 509 6 HOH HOH . 
AA 4 HOH C 2 510 7 HOH HOH . 
AA 4 HOH C 3 511 19 HOH HOH . 
AA 4 HOH C 4 512 20 HOH HOH . 
AA 4 HOH C 5 513 25 HOH HOH . 
AA 4 HOH C 6 514 26 HOH HOH . 
AA 4 HOH C 7 515 27 HOH HOH . 
AA 4 HOH C 8 516 33 HOH HOH . 
AA 4 HOH C 9 517 35 HOH HOH . 
AA 4 HOH C 10 518 42 HOH HOH . 
AA 4 HOH C 11 519 50 HOH HOH . 
AA 4 HOH C 12 520 51 HOH HOH . 
AA 4 HOH C 13 521 53 HOH HOH . 
AA 4 HOH C 14 522 70 HOH HOH . 
AA 4 HOH C 15 523 75 HOH HOH . 
AA 4 HOH C 16 524 78 HOH HOH . 
AA 4 HOH C 17 525 79 HOH HOH . 
AA 4 HOH C 18 526 80 HOH HOH . 
BA 4 HOH D 1 511 3 HOH HOH . 
BA 4 HOH D 2 512 5 HOH HOH . 
BA 4 HOH D 3 513 12 HOH HOH . 
BA 4 HOH D 4 514 23 HOH HOH . 
BA 4 HOH D 5 515 29 HOH HOH . 
BA 4 HOH D 6 516 44 HOH HOH . 
BA 4 HOH D 7 517 60 HOH HOH . 
BA 4 HOH D 8 518 61 HOH HOH . 
BA 4 HOH D 9 519 62 HOH HOH . 
BA 4 HOH D 10 520 63 HOH HOH . 
BA 4 HOH D 11 521 64 HOH HOH . 
BA 4 HOH D 12 522 68 HOH HOH . 
BA 4 HOH D 13 523 69 HOH HOH . 
BA 4 HOH D 14 524 74 HOH HOH . 
BA 4 HOH D 15 525 77 HOH HOH . 
BA 4 HOH D 16 526 81 HOH HOH . 
BA 4 HOH D 17 527 82 HOH HOH . 
CA 4 HOH E 1 512 8 HOH HOH . 
CA 4 HOH E 2 513 36 HOH HOH . 
CA 4 HOH E 3 514 38 HOH HOH . 
CA 4 HOH E 4 515 47 HOH HOH . 
CA 4 HOH E 5 516 48 HOH HOH . 
CA 4 HOH E 6 517 72 HOH HOH . 
DA 4 HOH F 1 513 2 HOH HOH . 
DA 4 HOH F 2 514 10 HOH HOH . 
DA 4 HOH F 3 515 15 HOH HOH . 
DA 4 HOH F 4 516 39 HOH HOH . 
DA 4 HOH F 5 517 58 HOH HOH . 
DA 4 HOH F 6 518 66 HOH HOH . 
DA 4 HOH F 7 519 71 HOH HOH . 
DA 4 HOH F 8 520 73 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 . . . U 3 -9.524 -22.539 -53.284 1 73.08 ? PA NAP 405 E 1 
HETATM 2 O O1A NAP . . . U 3 -9.53 -21.09 -53.585 1 72.87 ? O1A NAP 405 E 1 
HETATM 3 O O2A NAP . . . U 3 -8.266 -23.149 -52.799 1 76.82 ? O2A NAP 405 E 1 
HETATM 4 O O5B NAP . . . U 3 -10.037 -23.353 -54.575 1 78.95 ? O5B NAP 405 E 1 
HETATM 5 C C5B NAP . . . U 3 -9.825 -24.762 -54.709 1 80.04 ? C5B NAP 405 E 1 
HETATM 6 C C4B NAP . . . U 3 -8.369 -25.121 -55.027 1 78.92 ? C4B NAP 405 E 1 
HETATM 7 O O4B NAP . . . U 3 -8.321 -26.527 -55.335 1 79.1 ? O4B NAP 405 E 1 
HETATM 8 C C3B NAP . . . U 3 -7.89 -24.413 -56.296 1 79.93 ? C3B NAP 405 E 1 
HETATM 9 O O3B NAP . . . U 3 -6.461 -24.428 -56.355 1 77.87 ? O3B NAP 405 E 1 
HETATM 10 C C2B NAP . . . U 3 -8.462 -25.345 -57.364 1 81.33 ? C2B NAP 405 E 1 
HETATM 11 O O2B NAP . . . U 3 -7.775 -25.149 -58.603 1 79.41 ? O2B NAP 405 E 1 
HETATM 12 C C1B NAP . . . U 3 -8.022 -26.668 -56.736 1 84.82 ? C1B NAP 405 E 1 
HETATM 13 N N9A NAP . . . U 3 -8.715 -27.836 -57.332 1 90.15 ? N9A NAP 405 E 1 
HETATM 14 C C8A NAP . . . U 3 -10.03 -28.041 -57.359 1 90.47 ? C8A NAP 405 E 1 
HETATM 15 N N7A NAP . . . U 3 -10.293 -29.205 -57.947 1 91.81 ? N7A NAP 405 E 1 
HETATM 16 C C5A NAP . . . U 3 -9.133 -29.753 -58.294 1 93.63 ? C5A NAP 405 E 1 
HETATM 17 C C6A NAP . . . U 3 -8.764 -30.938 -58.921 1 95.55 ? C6A NAP 405 E 1 
HETATM 18 N N6A NAP . . . U 3 -9.69 -31.812 -59.308 1 96.62 ? N6A NAP 405 E 1 
HETATM 19 N N1A NAP . . . U 3 -7.464 -31.193 -59.125 1 95.88 ? N1A NAP 405 E 1 
HETATM 20 C C2A NAP . . . U 3 -6.528 -30.339 -58.741 1 95.03 ? C2A NAP 405 E 1 
HETATM 21 N N3A NAP . . . U 3 -6.844 -29.203 -58.144 1 94.31 ? N3A NAP 405 E 1 
HETATM 22 C C4A NAP . . . U 3 -8.125 -28.88 -57.905 1 92.42 ? C4A NAP 405 E 1 
HETATM 23 O O3 NAP . . . U 3 -10.689 -22.811 -52.206 1 71.73 ? O3 NAP 405 E 1 
HETATM 24 P PN NAP . . . U 3 -10.361 -22.835 -50.629 1 72.09 ? PN NAP 405 E 1 
HETATM 25 O O1N NAP . . . U 3 -10.844 -21.571 -50.029 1 70.67 ? O1N NAP 405 E 1 
HETATM 26 O O2N NAP . . . U 3 -8.949 -23.221 -50.413 1 65.83 ? O2N NAP 405 E 1 
HETATM 27 O O5D NAP . . . U 3 -11.301 -24.018 -50.071 1 66.98 ? O5D NAP 405 E 1 
HETATM 28 C C5D NAP . . . U 3 -11.199 -25.352 -50.58 1 65.82 ? C5D NAP 405 E 1 
HETATM 29 C C4D NAP . . . U 3 -12.073 -26.302 -49.757 1 66.03 ? C4D NAP 405 E 1 
HETATM 30 O O4D NAP . . . U 3 -11.595 -26.401 -48.407 1 67.48 ? O4D NAP 405 E 1 
HETATM 31 C C3D NAP . . . U 3 -13.482 -25.749 -49.56 1 69.6 ? C3D NAP 405 E 1 
HETATM 32 O O3D NAP . . . U 3 -14.281 -25.953 -50.729 1 66.71 ? O3D NAP 405 E 1 
HETATM 33 C C2D NAP . . . U 3 -13.969 -26.649 -48.424 1 69.03 ? C2D NAP 405 E 1 
HETATM 34 O O2D NAP . . . U 3 -14.498 -27.881 -48.921 1 72.8 ? O2D NAP 405 E 1 
HETATM 35 C C1D NAP . . . U 3 -12.69 -26.907 -47.62 1 67.93 ? C1D NAP 405 E 1 
HETATM 36 N N1N NAP . . . U 3 -12.706 -26.23 -46.302 1 68.33 ? N1N NAP 405 E 1 
HETATM 37 C C2N NAP . . . U 3 -12.949 -26.981 -45.141 1 67.86 ? C2N NAP 405 E 1 
HETATM 38 C C3N NAP . . . U 3 -12.961 -26.351 -43.9 1 68.82 ? C3N NAP 405 E 1 
HETATM 39 C C7N NAP . . . U 3 -13.24 -27.152 -42.623 1 69.3 ? C7N NAP 405 E 1 
HETATM 40 O O7N NAP . . . U 3 -13.571 -26.586 -41.581 1 71.22 ? O7N NAP 405 E 1 
HETATM 41 N N7N NAP . . . U 3 -13.122 -28.472 -42.739 1 70.12 ? N7N NAP 405 E 1 
HETATM 42 C C4N NAP . . . U 3 -12.732 -24.98 -43.821 1 69.08 ? C4N NAP 405 E 1 
HETATM 43 C C5N NAP . . . U 3 -12.488 -24.227 -44.966 1 69.71 ? C5N NAP 405 E 1 
HETATM 44 C C6N NAP . . . U 3 -12.473 -24.848 -46.211 1 69.36 ? C6N NAP 405 E 1 
HETATM 45 P P2B NAP . . . U 3 -8.002 -23.806 -59.464 1 76.4 ? P2B NAP 405 E 1 
HETATM 46 O O1X NAP . . . U 3 -7.898 -24.22 -61.015 1 80.74 ? O1X NAP 405 E 1 
HETATM 47 O O2X NAP . . . U 3 -9.531 -23.376 -59.201 1 75.35 ? O2X NAP 405 E 1 
HETATM 48 O O3X NAP . . . U 3 -7.046 -22.734 -59.105 1 76.48 ? O3X NAP 405 E 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    41 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           48 
#