data_2VQB
#
_model_server_result.job_id            4P6_IO2FCbAsnuE9xQvi1A 
_model_server_result.datetime_utc      '2024-11-08 01:40:19' 
_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          2vqb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":501}' 
#
_entry.id    2VQB 
#
_exptl.entry_id    2VQB 
_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    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         120 
_cell.entry_id            2VQB 
_cell.length_a            218.665 
_cell.length_b            218.665 
_cell.length_c            130.676 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2VQB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        169 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PQS dimeric 2 author_and_software_defined_assembly 1 
PQS dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,G,H,I,J,W,X,Y,Z,AA,BA 1 1 
B,C,K,L,M,N,O,P,Q,R,S,T,U,V 2 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 F N N 
? 3 L N N 
? 3 R 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 359 n n 
PA O2A NAP sing 360 n n 
PA O5B NAP sing 361 n n 
PA O3 NAP sing 362 n n 
O2A HOA2 NAP sing 363 n n 
O5B C5B NAP sing 364 n n 
C5B C4B NAP sing 365 n n 
C5B H51A NAP sing 366 n n 
C5B H52A NAP sing 367 n n 
C4B O4B NAP sing 368 n n 
C4B C3B NAP sing 369 n n 
C4B H4B NAP sing 370 n n 
O4B C1B NAP sing 371 n n 
C3B O3B NAP sing 372 n n 
C3B C2B NAP sing 373 n n 
C3B H3B NAP sing 374 n n 
O3B HO3A NAP sing 375 n n 
C2B O2B NAP sing 376 n n 
C2B C1B NAP sing 377 n n 
C2B H2B NAP sing 378 n n 
O2B P2B NAP sing 379 n n 
C1B N9A NAP sing 380 n n 
C1B H1B NAP sing 381 n n 
N9A C8A NAP sing 382 n y 
N9A C4A NAP sing 383 n y 
C8A N7A NAP doub 384 n y 
C8A H8A NAP sing 385 n n 
N7A C5A NAP sing 386 n y 
C5A C6A NAP sing 387 n y 
C5A C4A NAP doub 388 n y 
C6A N6A NAP sing 389 n n 
C6A N1A NAP doub 390 n y 
N6A H61A NAP sing 391 n n 
N6A H62A NAP sing 392 n n 
N1A C2A NAP sing 393 n y 
C2A N3A NAP doub 394 n y 
C2A H2A NAP sing 395 n n 
N3A C4A NAP sing 396 n y 
O3 PN NAP sing 397 n n 
PN O1N NAP doub 398 n n 
PN O2N NAP sing 399 n n 
PN O5D NAP sing 400 n n 
O5D C5D NAP sing 401 n n 
C5D C4D NAP sing 402 n n 
C5D H51N NAP sing 403 n n 
C5D H52N NAP sing 404 n n 
C4D O4D NAP sing 405 n n 
C4D C3D NAP sing 406 n n 
C4D H4D NAP sing 407 n n 
O4D C1D NAP sing 408 n n 
C3D O3D NAP sing 409 n n 
C3D C2D NAP sing 410 n n 
C3D H3D NAP sing 411 n n 
O3D HO3N NAP sing 412 n n 
C2D O2D NAP sing 413 n n 
C2D C1D NAP sing 414 n n 
C2D H2D NAP sing 415 n n 
O2D HO2N NAP sing 416 n n 
C1D N1N NAP sing 417 n n 
C1D H1D NAP sing 418 n n 
N1N C2N NAP sing 419 n y 
N1N C6N NAP doub 420 n y 
C2N C3N NAP doub 421 n y 
C2N H2N NAP sing 422 n n 
C3N C7N NAP sing 423 n n 
C3N C4N NAP sing 424 n y 
C7N O7N NAP doub 425 n n 
C7N N7N NAP sing 426 n n 
N7N H71N NAP sing 427 n n 
N7N H72N NAP sing 428 n n 
C4N C5N NAP doub 429 n y 
C4N H4N NAP sing 430 n n 
C5N C6N NAP sing 431 n y 
C5N H5N NAP sing 432 n n 
C6N H6N NAP sing 433 n n 
P2B O1X NAP doub 434 n n 
P2B O2X NAP sing 435 n n 
P2B O3X NAP sing 436 n n 
O2X HOP2 NAP sing 437 n n 
O3X HOP3 NAP sing 438 n n 
#
_atom_sites.entry_id                     2VQB 
_atom_sites.fract_transf_matrix[1][1]    0.004573 
_atom_sites.fract_transf_matrix[1][2]    0.00264 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005281 
_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]    0.007653 
_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 FAD A 1 500 500 FAD FAD . 
F 3 NAP A 1 501 501 NAP NAP . 
G 4 CL A 1 1451 1451 CL CL . 
H 5 EPE A 1 1452 1452 EPE EPE . 
I 6 OXY A 1 1453 1453 OXY OXY . 
J 6 OXY A 1 1454 1454 OXY OXY . 
K 2 FAD B 1 500 500 FAD FAD . 
L 3 NAP B 1 501 501 NAP NAP . 
M 4 CL B 1 1451 1451 CL CL . 
N 5 EPE B 1 1452 1452 EPE EPE . 
O 6 OXY B 1 1453 1453 OXY OXY . 
P 6 OXY B 1 1454 1454 OXY OXY . 
Q 2 FAD C 1 500 500 FAD FAD . 
R 3 NAP C 1 501 501 NAP NAP . 
S 5 EPE C 1 1451 1451 EPE EPE . 
T 6 OXY C 1 1452 1452 OXY OXY . 
U 6 OXY C 1 1453 1453 OXY OXY . 
V 4 CL C 1 1454 1454 CL CL . 
W 2 FAD D 1 500 500 FAD FAD . 
X 3 NAP D 1 501 501 NAP NAP . 
Y 4 CL D 1 1451 1451 CL CL . 
Z 5 EPE D 1 1452 1452 EPE EPE . 
AA 6 OXY D 1 1453 1453 OXY OXY . 
BA 6 OXY D 1 1454 1454 OXY OXY . 
#
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 . . . X 3 -16.49 180.411 13.819 1 45.63 ? PA NAP 501 D 1 
HETATM 2 O O1A NAP . . . X 3 -16.454 179.223 14.728 1 44.88 ? O1A NAP 501 D 1 
HETATM 3 O O2A NAP . . . X 3 -17.903 181.171 14.022 1 43.58 ? O2A NAP 501 D 1 
HETATM 4 O O5B NAP . . . X 3 -15.301 181.454 14.159 1 46.57 ? O5B NAP 501 D 1 
HETATM 5 C C5B NAP . . . X 3 -15.543 182.823 13.788 1 44.72 ? C5B NAP 501 D 1 
HETATM 6 C C4B NAP . . . X 3 -14.175 183.506 13.96 1 45.14 ? C4B NAP 501 D 1 
HETATM 7 O O4B NAP . . . X 3 -13.899 184.503 12.952 1 44.92 ? O4B NAP 501 D 1 
HETATM 8 C C3B NAP . . . X 3 -14.05 184.188 15.339 1 45.89 ? C3B NAP 501 D 1 
HETATM 9 O O3B NAP . . . X 3 -12.765 183.86 15.92 1 47.55 ? O3B NAP 501 D 1 
HETATM 10 C C2B NAP . . . X 3 -14.176 185.696 14.973 1 45.3 ? C2B NAP 501 D 1 
HETATM 11 O O2B NAP . . . X 3 -13.451 186.65 15.767 1 48.03 ? O2B NAP 501 D 1 
HETATM 12 C C1B NAP . . . X 3 -13.405 185.683 13.64 1 44.63 ? C1B NAP 501 D 1 
HETATM 13 N N9A NAP . . . X 3 -13.708 186.948 12.946 1 44.76 ? N9A NAP 501 D 1 
HETATM 14 C C8A NAP . . . X 3 -14.943 187.371 12.514 1 43.86 ? C8A NAP 501 D 1 
HETATM 15 N N7A NAP . . . X 3 -14.846 188.541 11.944 1 43.6 ? N7A NAP 501 D 1 
HETATM 16 C C5A NAP . . . X 3 -13.552 188.954 11.985 1 43.51 ? C5A NAP 501 D 1 
HETATM 17 C C6A NAP . . . X 3 -12.885 190.111 11.529 1 44.39 ? C6A NAP 501 D 1 
HETATM 18 N N6A NAP . . . X 3 -13.604 191.121 10.879 1 44.38 ? N6A NAP 501 D 1 
HETATM 19 N N1A NAP . . . X 3 -11.561 190.199 11.738 1 44.69 ? N1A NAP 501 D 1 
HETATM 20 C C2A NAP . . . X 3 -10.901 189.212 12.365 1 44.31 ? C2A NAP 501 D 1 
HETATM 21 N N3A NAP . . . X 3 -11.487 188.11 12.815 1 43.78 ? N3A NAP 501 D 1 
HETATM 22 C C4A NAP . . . X 3 -12.801 187.944 12.638 1 43.61 ? C4A NAP 501 D 1 
HETATM 23 O O3 NAP . . . X 3 -16.292 179.922 12.309 1 45.1 ? O3 NAP 501 D 1 
HETATM 24 P PN NAP . . . X 3 -15.09 178.875 12.016 1 45.52 ? PN NAP 501 D 1 
HETATM 25 O O1N NAP . . . X 3 -13.882 179.007 12.981 1 45.68 ? O1N NAP 501 D 1 
HETATM 26 O O2N NAP . . . X 3 -14.644 179.155 10.526 1 44.7 ? O2N NAP 501 D 1 
HETATM 27 O O5D NAP . . . X 3 -15.551 177.335 12.096 1 44.47 ? O5D NAP 501 D 1 
HETATM 28 C C5D NAP . . . X 3 -16.961 177.2 12.289 1 42.19 ? C5D NAP 501 D 1 
HETATM 29 C C4D NAP . . . X 3 -17.362 175.712 12.204 1 41.84 ? C4D NAP 501 D 1 
HETATM 30 O O4D NAP . . . X 3 -16.54 174.963 11.264 1 42.95 ? O4D NAP 501 D 1 
HETATM 31 C C3D NAP . . . X 3 -17.247 175.02 13.571 1 41.27 ? C3D NAP 501 D 1 
HETATM 32 O O3D NAP . . . X 3 -18.409 174.228 13.686 1 41.43 ? O3D NAP 501 D 1 
HETATM 33 C C2D NAP . . . X 3 -16.03 174.089 13.454 1 41.62 ? C2D NAP 501 D 1 
HETATM 34 O O2D NAP . . . X 3 -16.287 172.851 14.125 1 43.65 ? O2D NAP 501 D 1 
HETATM 35 C C1D NAP . . . X 3 -15.972 173.813 11.947 1 42.34 ? C1D NAP 501 D 1 
HETATM 36 N N1N NAP . . . X 3 -14.612 173.494 11.445 1 42.72 ? N1N NAP 501 D 1 
HETATM 37 C C2N NAP . . . X 3 -14.083 172.301 11.737 1 42.01 ? C2N NAP 501 D 1 
HETATM 38 C C3N NAP . . . X 3 -12.798 171.926 11.259 1 43.19 ? C3N NAP 501 D 1 
HETATM 39 C C7N NAP . . . X 3 -12.219 170.594 11.609 1 43.74 ? C7N NAP 501 D 1 
HETATM 40 O O7N NAP . . . X 3 -11.023 170.492 11.847 1 47.04 ? O7N NAP 501 D 1 
HETATM 41 N N7N NAP . . . X 3 -13.002 169.488 11.666 1 43.11 ? N7N NAP 501 D 1 
HETATM 42 C C4N NAP . . . X 3 -12.063 172.846 10.456 1 41.46 ? C4N NAP 501 D 1 
HETATM 43 C C5N NAP . . . X 3 -12.658 174.089 10.164 1 41.47 ? C5N NAP 501 D 1 
HETATM 44 C C6N NAP . . . X 3 -13.943 174.381 10.666 1 41.84 ? C6N NAP 501 D 1 
HETATM 45 P P2B NAP . . . X 3 -14.125 186.857 17.228 1 51.75 ? P2B NAP 501 D 1 
HETATM 46 O O1X NAP . . . X 3 -13.73 185.67 18.064 1 50.6 ? O1X NAP 501 D 1 
HETATM 47 O O2X NAP . . . X 3 -13.514 188.221 17.848 1 50.64 ? O2X NAP 501 D 1 
HETATM 48 O O3X NAP . . . X 3 -15.73 186.947 17.167 1 50.06 ? O3X NAP 501 D 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           48 
#