data_2VQB
#
_model_server_result.job_id            T6y_YMWKa6kKh1EKKwfaRg 
_model_server_result.datetime_utc      '2024-11-28 14:19:36' 
_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":"F","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 . . . F 3 -15.961 181.652 -24.47 1 45.88 ? PA NAP 501 A 1 
HETATM 2 O O1A NAP . . . F 3 -15.722 182.858 -25.334 1 44.79 ? O1A NAP 501 A 1 
HETATM 3 O O2A NAP . . . F 3 -17.437 181.05 -24.703 1 43.28 ? O2A NAP 501 A 1 
HETATM 4 O O5B NAP . . . F 3 -14.89 180.482 -24.806 1 46.63 ? O5B NAP 501 A 1 
HETATM 5 C C5B NAP . . . F 3 -15.367 179.177 -24.434 1 45.01 ? C5B NAP 501 A 1 
HETATM 6 C C4B NAP . . . F 3 -14.127 178.266 -24.549 1 45.42 ? C4B NAP 501 A 1 
HETATM 7 O O4B NAP . . . F 3 -14.084 177.236 -23.521 1 44.96 ? O4B NAP 501 A 1 
HETATM 8 C C3B NAP . . . F 3 -14.06 177.579 -25.942 1 45.99 ? C3B NAP 501 A 1 
HETATM 9 O O3B NAP . . . F 3 -12.704 177.673 -26.451 1 47.49 ? O3B NAP 501 A 1 
HETATM 10 C C2B NAP . . . F 3 -14.468 176.115 -25.594 1 45.36 ? C2B NAP 501 A 1 
HETATM 11 O O2B NAP . . . F 3 -13.846 175.086 -26.37 1 47.98 ? O2B NAP 501 A 1 
HETATM 12 C C1B NAP . . . F 3 -13.777 175.99 -24.215 1 44.82 ? C1B NAP 501 A 1 
HETATM 13 N N9A NAP . . . F 3 -14.265 174.783 -23.521 1 44.67 ? N9A NAP 501 A 1 
HETATM 14 C C8A NAP . . . F 3 -15.546 174.575 -23.091 1 43.83 ? C8A NAP 501 A 1 
HETATM 15 N N7A NAP . . . F 3 -15.626 173.405 -22.519 1 43.68 ? N7A NAP 501 A 1 
HETATM 16 C C5A NAP . . . F 3 -14.414 172.787 -22.548 1 43.61 ? C5A NAP 501 A 1 
HETATM 17 C C6A NAP . . . F 3 -13.93 171.539 -22.089 1 44.33 ? C6A NAP 501 A 1 
HETATM 18 N N6A NAP . . . F 3 -14.771 170.648 -21.439 1 44.35 ? N6A NAP 501 A 1 
HETATM 19 N N1A NAP . . . F 3 -12.643 171.24 -22.294 1 44.76 ? N1A NAP 501 A 1 
HETATM 20 C C2A NAP . . . F 3 -11.828 172.106 -22.925 1 44.41 ? C2A NAP 501 A 1 
HETATM 21 N N3A NAP . . . F 3 -12.247 173.286 -23.381 1 43.81 ? N3A NAP 501 A 1 
HETATM 22 C C4A NAP . . . F 3 -13.518 173.665 -23.206 1 43.5 ? C4A NAP 501 A 1 
HETATM 23 O O3 NAP . . . F 3 -15.673 182.106 -22.938 1 45.47 ? O3 NAP 501 A 1 
HETATM 24 P PN NAP . . . F 3 -14.384 182.931 -22.648 1 45.46 ? PN NAP 501 A 1 
HETATM 25 O O1N NAP . . . F 3 -13.1 182.675 -23.527 1 45.71 ? O1N NAP 501 A 1 
HETATM 26 O O2N NAP . . . F 3 -13.937 182.585 -21.119 1 44.77 ? O2N NAP 501 A 1 
HETATM 27 O O5D NAP . . . F 3 -14.532 184.563 -22.659 1 44.28 ? O5D NAP 501 A 1 
HETATM 28 C C5D NAP . . . F 3 -15.897 184.908 -22.902 1 42.27 ? C5D NAP 501 A 1 
HETATM 29 C C4D NAP . . . F 3 -16.057 186.444 -22.813 1 42.01 ? C4D NAP 501 A 1 
HETATM 30 O O4D NAP . . . F 3 -15.103 187.041 -21.88 1 42.92 ? O4D NAP 501 A 1 
HETATM 31 C C3D NAP . . . F 3 -15.843 187.128 -24.189 1 41.42 ? C3D NAP 501 A 1 
HETATM 32 O O3D NAP . . . F 3 -16.878 188.087 -24.345 1 41.35 ? O3D NAP 501 A 1 
HETATM 33 C C2D NAP . . . F 3 -14.473 187.844 -24.078 1 41.77 ? C2D NAP 501 A 1 
HETATM 34 O O2D NAP . . . F 3 -14.489 189.118 -24.75 1 43.83 ? O2D NAP 501 A 1 
HETATM 35 C C1D NAP . . . F 3 -14.374 188.094 -22.569 1 42.28 ? C1D NAP 501 A 1 
HETATM 36 N N1N NAP . . . F 3 -12.993 188.18 -22.071 1 42.64 ? N1N NAP 501 A 1 
HETATM 37 C C2N NAP . . . F 3 -12.293 189.279 -22.331 1 42.17 ? C2N NAP 501 A 1 
HETATM 38 C C3N NAP . . . F 3 -10.985 189.456 -21.824 1 43.18 ? C3N NAP 501 A 1 
HETATM 39 C C7N NAP . . . F 3 -10.212 190.685 -22.119 1 43.82 ? C7N NAP 501 A 1 
HETATM 40 O O7N NAP . . . F 3 -9.002 190.584 -22.212 1 47.35 ? O7N NAP 501 A 1 
HETATM 41 N N7N NAP . . . F 3 -10.81 191.905 -22.278 1 43.28 ? N7N NAP 501 A 1 
HETATM 42 C C4N NAP . . . F 3 -10.409 188.44 -21.027 1 41.55 ? C4N NAP 501 A 1 
HETATM 43 C C5N NAP . . . F 3 -11.19 187.306 -20.775 1 41.47 ? C5N NAP 501 A 1 
HETATM 44 C C6N NAP . . . F 3 -12.484 187.209 -21.305 1 41.75 ? C6N NAP 501 A 1 
HETATM 45 P P2B NAP . . . F 3 -14.528 175.013 -27.829 1 51.63 ? P2B NAP 501 A 1 
HETATM 46 O O1X NAP . . . F 3 -13.966 176.104 -28.67 1 50.34 ? O1X NAP 501 A 1 
HETATM 47 O O2X NAP . . . F 3 -14.153 173.545 -28.424 1 51.16 ? O2X NAP 501 A 1 
HETATM 48 O O3X NAP . . . F 3 -16.13 175.106 -27.778 1 50.27 ? O3X NAP 501 A 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           290 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           48 
#