data_4V59
#
_model_server_result.job_id            f-_5DcJOSwszgbNldR0QHg 
_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":"X","auth_seq_id":2102}' 
#
_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 . . . X 3 -62.249 -18.762 11.49 1 64.95 ? PA NAP 2102 I 1 
HETATM 2 O O1A NAP . . . X 3 -62.544 -17.534 10.719 1 73.58 ? O1A NAP 2102 I 1 
HETATM 3 O O2A NAP . . . X 3 -60.826 -19.127 11.355 1 100.79 ? O2A NAP 2102 I 1 
HETATM 4 O O5B NAP . . . X 3 -62.639 -18.661 13.04 1 29.98 ? O5B NAP 2102 I 1 
HETATM 5 C C5B NAP . . . X 3 -63.824 -19.259 13.504 1 39.74 ? C5B NAP 2102 I 1 
HETATM 6 C C4B NAP . . . X 3 -63.761 -19.203 15.021 1 49.52 ? C4B NAP 2102 I 1 
HETATM 7 O O4B NAP . . . X 3 -64.794 -18.414 15.57 1 55.09 ? O4B NAP 2102 I 1 
HETATM 8 C C3B NAP . . . X 3 -63.927 -20.544 15.711 1 54.76 ? C3B NAP 2102 I 1 
HETATM 9 O O3B NAP . . . X 3 -62.771 -21.343 15.608 1 57.04 ? O3B NAP 2102 I 1 
HETATM 10 C C2B NAP . . . X 3 -64.332 -20.145 17.127 1 67.09 ? C2B NAP 2102 I 1 
HETATM 11 O O2B NAP . . . X 3 -63.299 -19.946 18.071 1 81.15 ? O2B NAP 2102 I 1 
HETATM 12 C C1B NAP . . . X 3 -64.984 -18.778 16.928 1 84.66 ? C1B NAP 2102 I 1 
HETATM 13 N N9A NAP . . . X 3 -66.417 -18.825 17.293 1 91.67 ? N9A NAP 2102 I 1 
HETATM 14 C C8A NAP . . . X 3 -67.497 -18.617 16.47 1 71.88 ? C8A NAP 2102 I 1 
HETATM 15 N N7A NAP . . . X 3 -68.624 -18.755 17.209 1 83.28 ? N7A NAP 2102 I 1 
HETATM 16 C C5A NAP . . . X 3 -68.276 -19.042 18.485 1 67.71 ? C5A NAP 2102 I 1 
HETATM 17 C C6A NAP . . . X 3 -69.009 -19.279 19.639 1 83.14 ? C6A NAP 2102 I 1 
HETATM 18 N N6A NAP . . . X 3 -70.332 -19.248 19.604 1 98.9 ? N6A NAP 2102 I 1 
HETATM 19 N N1A NAP . . . X 3 -68.37 -19.551 20.83 1 90.61 ? N1A NAP 2102 I 1 
HETATM 20 C C2A NAP . . . X 3 -66.995 -19.59 20.878 1 73.5 ? C2A NAP 2102 I 1 
HETATM 21 N N3A NAP . . . X 3 -66.271 -19.358 19.729 1 103.74 ? N3A NAP 2102 I 1 
HETATM 22 C C4A NAP . . . X 3 -66.896 -19.087 18.553 1 89.96 ? C4A NAP 2102 I 1 
HETATM 23 O O3 NAP . . . X 3 -63.203 -19.945 10.993 1 85.22 ? O3 NAP 2102 I 1 
HETATM 24 P PN NAP . . . X 3 -63.793 -20.263 9.537 1 103.3 ? PN NAP 2102 I 1 
HETATM 25 O O1N NAP . . . X 3 -65.236 -20.526 9.759 1 114.19 ? O1N NAP 2102 I 1 
HETATM 26 O O2N NAP . . . X 3 -63.354 -19.164 8.641 1 56.12 ? O2N NAP 2102 I 1 
HETATM 27 O O5D NAP . . . X 3 -63.033 -21.627 9.089 1 93.69 ? O5D NAP 2102 I 1 
HETATM 28 C C5D NAP . . . X 3 -63.348 -22.893 9.64 1 48.88 ? C5D NAP 2102 I 1 
HETATM 29 C C4D NAP . . . X 3 -62.358 -23.958 9.184 1 67.72 ? C4D NAP 2102 I 1 
HETATM 30 O O4D NAP . . . X 3 -62.75 -24.468 7.928 1 67.77 ? O4D NAP 2102 I 1 
HETATM 31 C C3D NAP . . . X 3 -60.974 -23.361 9.015 1 104.32 ? C3D NAP 2102 I 1 
HETATM 32 O O3D NAP . . . X 3 -60.033 -24.322 9.434 1 40.71 ? O3D NAP 2102 I 1 
HETATM 33 C C2D NAP . . . X 3 -60.918 -23.068 7.525 1 104.99 ? C2D NAP 2102 I 1 
HETATM 34 O O2D NAP . . . X 3 -59.617 -23.107 6.986 1 87.89 ? O2D NAP 2102 I 1 
HETATM 35 C C1D NAP . . . X 3 -61.771 -24.184 6.957 1 85.79 ? C1D NAP 2102 I 1 
HETATM 36 N N1N NAP . . . X 3 -62.409 -23.846 5.683 1 70.02 ? N1N NAP 2102 I 1 
HETATM 37 C C2N NAP . . . X 3 -62.019 -24.54 4.542 1 88.64 ? C2N NAP 2102 I 1 
HETATM 38 C C3N NAP . . . X 3 -62.609 -24.26 3.317 1 80.86 ? C3N NAP 2102 I 1 
HETATM 39 C C7N NAP . . . X 3 -62.206 -24.973 2.074 1 83.17 ? C7N NAP 2102 I 1 
HETATM 40 O O7N NAP . . . X 3 -62.766 -24.722 1.014 1 89.58 ? O7N NAP 2102 I 1 
HETATM 41 N N7N NAP . . . X 3 -61.19 -25.818 2.195 1 116.01 ? N7N NAP 2102 I 1 
HETATM 42 C C4N NAP . . . X 3 -63.583 -23.281 3.233 1 71.17 ? C4N NAP 2102 I 1 
HETATM 43 C C5N NAP . . . X 3 -63.977 -22.586 4.372 1 83.32 ? C5N NAP 2102 I 1 
HETATM 44 C C6N NAP . . . X 3 -63.397 -22.863 5.609 1 41.6 ? C6N NAP 2102 I 1 
HETATM 45 P P2B NAP . . . X 3 -62.106 -20.937 18.486 1 58.29 ? P2B NAP 2102 I 1 
HETATM 46 O O1X NAP . . . X 3 -61.989 -20.914 19.989 1 70.91 ? O1X NAP 2102 I 1 
HETATM 47 O O2X NAP . . . X 3 -60.83 -20.391 17.896 1 83.35 ? O2X NAP 2102 I 1 
HETATM 48 O O3X NAP . . . X 3 -62.329 -22.341 17.996 1 62.93 ? O3X NAP 2102 I 1 
#
_model_server_stats.io_time_ms              93 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    737 
_model_server_stats.query_time_ms           419 
_model_server_stats.encode_time_ms          14 
_model_server_stats.element_count           48 
#