data_4V59
#
_model_server_result.job_id            NM66aBgP67-zzIAIpmpbhg 
_model_server_result.datetime_utc      '2024-12-16 10:41:34' 
_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          4v59 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1901}' 
#
_entry.id    4V59 
#
_exptl.entry_id    4V59 
_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    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          111.57 
_cell.angle_gamma         90 
_cell.entry_id            4V59 
_cell.length_a            215.78 
_cell.length_b            412.67 
_cell.length_c            220.9 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4V59 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA 
_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    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 M N N 
? 3 N N N 
? 3 O N N 
? 3 P N N 
? 3 Q N N 
? 3 R N N 
? 3 T N N 
? 3 V N N 
? 3 X N N 
? 3 Z N N 
? 3 BA N N 
? 3 DA 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 289 n n 
PA O2A NAP sing 290 n n 
PA O5B NAP sing 291 n n 
PA O3 NAP sing 292 n n 
O2A HOA2 NAP sing 293 n n 
O5B C5B NAP sing 294 n n 
C5B C4B NAP sing 295 n n 
C5B H51A NAP sing 296 n n 
C5B H52A NAP sing 297 n n 
C4B O4B NAP sing 298 n n 
C4B C3B NAP sing 299 n n 
C4B H4B NAP sing 300 n n 
O4B C1B NAP sing 301 n n 
C3B O3B NAP sing 302 n n 
C3B C2B NAP sing 303 n n 
C3B H3B NAP sing 304 n n 
O3B HO3A NAP sing 305 n n 
C2B O2B NAP sing 306 n n 
C2B C1B NAP sing 307 n n 
C2B H2B NAP sing 308 n n 
O2B P2B NAP sing 309 n n 
C1B N9A NAP sing 310 n n 
C1B H1B NAP sing 311 n n 
N9A C8A NAP sing 312 n y 
N9A C4A NAP sing 313 n y 
C8A N7A NAP doub 314 n y 
C8A H8A NAP sing 315 n n 
N7A C5A NAP sing 316 n y 
C5A C6A NAP sing 317 n y 
C5A C4A NAP doub 318 n y 
C6A N6A NAP sing 319 n n 
C6A N1A NAP doub 320 n y 
N6A H61A NAP sing 321 n n 
N6A H62A NAP sing 322 n n 
N1A C2A NAP sing 323 n y 
C2A N3A NAP doub 324 n y 
C2A H2A NAP sing 325 n n 
N3A C4A NAP sing 326 n y 
O3 PN NAP sing 327 n n 
PN O1N NAP doub 328 n n 
PN O2N NAP sing 329 n n 
PN O5D NAP sing 330 n n 
O5D C5D NAP sing 331 n n 
C5D C4D NAP sing 332 n n 
C5D H51N NAP sing 333 n n 
C5D H52N NAP sing 334 n n 
C4D O4D NAP sing 335 n n 
C4D C3D NAP sing 336 n n 
C4D H4D NAP sing 337 n n 
O4D C1D NAP sing 338 n n 
C3D O3D NAP sing 339 n n 
C3D C2D NAP sing 340 n n 
C3D H3D NAP sing 341 n n 
O3D HO3N NAP sing 342 n n 
C2D O2D NAP sing 343 n n 
C2D C1D NAP sing 344 n n 
C2D H2D NAP sing 345 n n 
O2D HO2N NAP sing 346 n n 
C1D N1N NAP sing 347 n n 
C1D H1D NAP sing 348 n n 
N1N C2N NAP sing 349 n y 
N1N C6N NAP doub 350 n y 
C2N C3N NAP doub 351 n y 
C2N H2N NAP sing 352 n n 
C3N C7N NAP sing 353 n n 
C3N C4N NAP sing 354 n y 
C7N O7N NAP doub 355 n n 
C7N N7N NAP sing 356 n n 
N7N H71N NAP sing 357 n n 
N7N H72N NAP sing 358 n n 
C4N C5N NAP doub 359 n y 
C4N H4N NAP sing 360 n n 
C5N C6N NAP sing 361 n y 
C5N H5N NAP sing 362 n n 
C6N H6N NAP sing 363 n n 
P2B O1X NAP doub 364 n n 
P2B O2X NAP sing 365 n n 
P2B O3X NAP sing 366 n n 
O2X HOP2 NAP sing 367 n n 
O3X HOP3 NAP sing 368 n n 
#
_atom_sites.entry_id                     4V59 
_atom_sites.fract_transf_matrix[1][1]    0.004634 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001832 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.002423 
_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]    0.004868 
_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
M 3 NAP A 1 1901 1901 NAP NAP . 
N 3 NAP B 1 1901 1901 NAP NAP . 
O 3 NAP C 1 1901 1901 NAP NAP . 
P 3 NAP D 1 1901 1901 NAP NAP . 
Q 3 NAP E 1 1901 1901 NAP NAP . 
R 3 NAP F 1 1901 1901 NAP NAP . 
S 4 FMN G 1 2101 2101 FMN FMN . 
T 3 NAP G 1 2102 2102 NAP NAP . 
U 4 FMN H 1 2101 2101 FMN FMN . 
V 3 NAP H 1 2102 2102 NAP NAP . 
W 4 FMN I 1 2101 2101 FMN FMN . 
X 3 NAP I 1 2102 2102 NAP NAP . 
Y 4 FMN J 1 2101 2101 FMN FMN . 
Z 3 NAP J 1 2102 2102 NAP NAP . 
AA 4 FMN K 1 2101 2101 FMN FMN . 
BA 3 NAP K 1 2102 2102 NAP NAP . 
CA 4 FMN L 1 2101 2101 FMN FMN . 
DA 3 NAP L 1 2102 2102 NAP NAP . 
#
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 . . . M 3 41.969 30.238 -9.53 1 169.44 ? PA NAP 1901 A 1 
HETATM 2 O O1A NAP . . . M 3 41.911 28.805 -9.931 1 86.75 ? O1A NAP 1901 A 1 
HETATM 3 O O2A NAP . . . M 3 40.615 30.85 -9.496 1 116.22 ? O2A NAP 1901 A 1 
HETATM 4 O O5B NAP . . . M 3 42.754 30.459 -8.138 1 102.92 ? O5B NAP 1901 A 1 
HETATM 5 C C5B NAP . . . M 3 42.053 30.617 -6.93 1 93.13 ? C5B NAP 1901 A 1 
HETATM 6 C C4B NAP . . . M 3 43.016 30.669 -5.756 1 64.64 ? C4B NAP 1901 A 1 
HETATM 7 O O4B NAP . . . M 3 42.387 31.351 -4.695 1 71.33 ? O4B NAP 1901 A 1 
HETATM 8 C C3B NAP . . . M 3 43.344 29.284 -5.219 1 92.88 ? C3B NAP 1901 A 1 
HETATM 9 O O3B NAP . . . M 3 44.581 28.825 -5.711 1 62.05 ? O3B NAP 1901 A 1 
HETATM 10 C C2B NAP . . . M 3 43.369 29.422 -3.705 1 97.46 ? C2B NAP 1901 A 1 
HETATM 11 O O2B NAP . . . M 3 44.688 29.483 -3.203 1 121.33 ? O2B NAP 1901 A 1 
HETATM 12 C C1B NAP . . . M 3 42.686 30.758 -3.445 1 90.72 ? C1B NAP 1901 A 1 
HETATM 13 N N9A NAP . . . M 3 41.464 30.536 -2.643 1 66.09 ? N9A NAP 1901 A 1 
HETATM 14 C C8A NAP . . . M 3 40.391 29.747 -2.98 1 76.73 ? C8A NAP 1901 A 1 
HETATM 15 N N7A NAP . . . M 3 39.49 29.801 -1.971 1 59.93 ? N7A NAP 1901 A 1 
HETATM 16 C C5A NAP . . . M 3 39.97 30.61 -0.997 1 42.03 ? C5A NAP 1901 A 1 
HETATM 17 C C6A NAP . . . M 3 39.46 31.008 0.239 1 64.74 ? C6A NAP 1901 A 1 
HETATM 18 N N6A NAP . . . M 3 38.271 30.572 0.659 1 63.13 ? N6A NAP 1901 A 1 
HETATM 19 N N1A NAP . . . M 3 40.194 31.864 1.042 1 39.79 ? N1A NAP 1901 A 1 
HETATM 20 C C2A NAP . . . M 3 41.428 32.309 0.613 1 19.09 ? C2A NAP 1901 A 1 
HETATM 21 N N3A NAP . . . M 3 41.933 31.91 -0.612 1 44.52 ? N3A NAP 1901 A 1 
HETATM 22 C C4A NAP . . . M 3 41.214 31.075 -1.405 1 46.93 ? C4A NAP 1901 A 1 
HETATM 23 O O3 NAP . . . M 3 42.964 31.001 -10.535 1 115.67 ? O3 NAP 1901 A 1 
HETATM 24 P PN NAP . . . M 3 42.786 32.425 -11.258 1 113.77 ? PN NAP 1901 A 1 
HETATM 25 O O1N NAP . . . M 3 44.108 32.846 -11.774 1 88.35 ? O1N NAP 1901 A 1 
HETATM 26 O O2N NAP . . . M 3 41.6 32.365 -12.146 1 117.12 ? O2N NAP 1901 A 1 
HETATM 27 O O5D NAP . . . M 3 42.425 33.384 -10.019 1 122.19 ? O5D NAP 1901 A 1 
HETATM 28 C C5D NAP . . . M 3 43.228 34.5 -9.723 1 99.95 ? C5D NAP 1901 A 1 
HETATM 29 C C4D NAP . . . M 3 42.438 35.781 -9.968 1 111.15 ? C4D NAP 1901 A 1 
HETATM 30 O O4D NAP . . . M 3 42.288 36.023 -11.352 1 67.82 ? O4D NAP 1901 A 1 
HETATM 31 C C3D NAP . . . M 3 41.022 35.74 -9.411 1 133.19 ? C3D NAP 1901 A 1 
HETATM 32 O O3D NAP . . . M 3 40.797 36.899 -8.638 1 73.56 ? O3D NAP 1901 A 1 
HETATM 33 C C2D NAP . . . M 3 40.168 35.781 -10.663 1 75.26 ? C2D NAP 1901 A 1 
HETATM 34 O O2D NAP . . . M 3 38.886 36.336 -10.482 1 56.37 ? O2D NAP 1901 A 1 
HETATM 35 C C1D NAP . . . M 3 41.038 36.632 -11.563 1 72.97 ? C1D NAP 1901 A 1 
HETATM 36 N N1N NAP . . . M 3 40.55 36.496 -12.936 1 76.63 ? N1N NAP 1901 A 1 
HETATM 37 C C2N NAP . . . M 3 41.091 35.529 -13.794 1 99.73 ? C2N NAP 1901 A 1 
HETATM 38 C C3N NAP . . . M 3 40.611 35.409 -15.096 1 105.14 ? C3N NAP 1901 A 1 
HETATM 39 C C7N NAP . . . M 3 41.188 34.345 -16.032 1 83.84 ? C7N NAP 1901 A 1 
HETATM 40 O O7N NAP . . . M 3 40.789 34.203 -17.191 1 76.3 ? O7N NAP 1901 A 1 
HETATM 41 N N7N NAP . . . M 3 42.109 33.541 -15.5 1 54.07 ? N7N NAP 1901 A 1 
HETATM 42 C C4N NAP . . . M 3 39.595 36.27 -15.52 1 75.51 ? C4N NAP 1901 A 1 
HETATM 43 C C5N NAP . . . M 3 39.061 37.23 -14.667 1 62.33 ? C5N NAP 1901 A 1 
HETATM 44 C C6N NAP . . . M 3 39.536 37.343 -13.367 1 69.63 ? C6N NAP 1901 A 1 
HETATM 45 P P2B NAP . . . M 3 45.277 28.376 -2.184 1 96.12 ? P2B NAP 1901 A 1 
HETATM 46 O O1X NAP . . . M 3 46.649 28.818 -1.732 1 44.22 ? O1X NAP 1901 A 1 
HETATM 47 O O2X NAP . . . M 3 45.384 27.047 -2.9 1 78.5 ? O2X NAP 1901 A 1 
HETATM 48 O O3X NAP . . . M 3 44.354 28.248 -0.989 1 66.93 ? O3X NAP 1901 A 1 
#
_model_server_stats.io_time_ms              114 
_model_server_stats.parse_time_ms           106 
_model_server_stats.create_model_time_ms    724 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           48 
#