data_2VZ9
#
_model_server_result.job_id            G2eQNuDhSqWDdaUjCgVLkA 
_model_server_result.datetime_utc      '2024-10-14 00:28:46' 
_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          2vz9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":3001}' 
#
_entry.id    2VZ9 
#
_exptl.entry_id    2VZ9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          2 
_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          101.84 
_cell.angle_gamma         90 
_cell.entry_id            2VZ9 
_cell.length_a            96.15 
_cell.length_b            244.89 
_cell.length_c            135.37 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2VZ9 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F 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 235 n n 
PA O2A NAP sing 236 n n 
PA O5B NAP sing 237 n n 
PA O3 NAP sing 238 n n 
O2A HOA2 NAP sing 239 n n 
O5B C5B NAP sing 240 n n 
C5B C4B NAP sing 241 n n 
C5B H51A NAP sing 242 n n 
C5B H52A NAP sing 243 n n 
C4B O4B NAP sing 244 n n 
C4B C3B NAP sing 245 n n 
C4B H4B NAP sing 246 n n 
O4B C1B NAP sing 247 n n 
C3B O3B NAP sing 248 n n 
C3B C2B NAP sing 249 n n 
C3B H3B NAP sing 250 n n 
O3B HO3A NAP sing 251 n n 
C2B O2B NAP sing 252 n n 
C2B C1B NAP sing 253 n n 
C2B H2B NAP sing 254 n n 
O2B P2B NAP sing 255 n n 
C1B N9A NAP sing 256 n n 
C1B H1B NAP sing 257 n n 
N9A C8A NAP sing 258 n y 
N9A C4A NAP sing 259 n y 
C8A N7A NAP doub 260 n y 
C8A H8A NAP sing 261 n n 
N7A C5A NAP sing 262 n y 
C5A C6A NAP sing 263 n y 
C5A C4A NAP doub 264 n y 
C6A N6A NAP sing 265 n n 
C6A N1A NAP doub 266 n y 
N6A H61A NAP sing 267 n n 
N6A H62A NAP sing 268 n n 
N1A C2A NAP sing 269 n y 
C2A N3A NAP doub 270 n y 
C2A H2A NAP sing 271 n n 
N3A C4A NAP sing 272 n y 
O3 PN NAP sing 273 n n 
PN O1N NAP doub 274 n n 
PN O2N NAP sing 275 n n 
PN O5D NAP sing 276 n n 
O5D C5D NAP sing 277 n n 
C5D C4D NAP sing 278 n n 
C5D H51N NAP sing 279 n n 
C5D H52N NAP sing 280 n n 
C4D O4D NAP sing 281 n n 
C4D C3D NAP sing 282 n n 
C4D H4D NAP sing 283 n n 
O4D C1D NAP sing 284 n n 
C3D O3D NAP sing 285 n n 
C3D C2D NAP sing 286 n n 
C3D H3D NAP sing 287 n n 
O3D HO3N NAP sing 288 n n 
C2D O2D NAP sing 289 n n 
C2D C1D NAP sing 290 n n 
C2D H2D NAP sing 291 n n 
O2D HO2N NAP sing 292 n n 
C1D N1N NAP sing 293 n n 
C1D H1D NAP sing 294 n n 
N1N C2N NAP sing 295 n y 
N1N C6N NAP doub 296 n y 
C2N C3N NAP doub 297 n y 
C2N H2N NAP sing 298 n n 
C3N C7N NAP sing 299 n n 
C3N C4N NAP sing 300 n y 
C7N O7N NAP doub 301 n n 
C7N N7N NAP sing 302 n n 
N7N H71N NAP sing 303 n n 
N7N H72N NAP sing 304 n n 
C4N C5N NAP doub 305 n y 
C4N H4N NAP sing 306 n n 
C5N C6N NAP sing 307 n y 
C5N H5N NAP sing 308 n n 
C6N H6N NAP sing 309 n n 
P2B O1X NAP doub 310 n n 
P2B O2X NAP sing 311 n n 
P2B O3X NAP sing 312 n n 
O2X HOP2 NAP sing 313 n n 
O3X HOP3 NAP sing 314 n n 
#
_atom_sites.entry_id                     2VZ9 
_atom_sites.fract_transf_matrix[1][1]    0.0104 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00218 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004083 
_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]    0.007548 
_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
C 2 NAP A 1 3001 3001 NAP NAP . 
D 2 NAP A 1 3002 3002 NAP NAP . 
E 2 NAP B 1 3001 3001 NAP NAP . 
F 2 NAP B 1 3002 3002 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 . . . C 2 37.93 141.378 82.063 1 106.04 ? PA NAP 3001 A 1 
HETATM 2 O O1A NAP . . . C 2 39.326 140.989 82.395 1 117.45 ? O1A NAP 3001 A 1 
HETATM 3 O O2A NAP . . . C 2 37.283 142.003 83.235 1 127.42 ? O2A NAP 3001 A 1 
HETATM 4 O O5B NAP . . . C 2 37.145 140.046 81.604 1 134.47 ? O5B NAP 3001 A 1 
HETATM 5 C C5B NAP . . . C 2 36.821 139.813 80.256 1 124.35 ? C5B NAP 3001 A 1 
HETATM 6 C C4B NAP . . . C 2 35.314 139.68 80.094 1 140.33 ? C4B NAP 3001 A 1 
HETATM 7 O O4B NAP . . . C 2 34.979 138.665 79.162 1 140.9 ? O4B NAP 3001 A 1 
HETATM 8 C C3B NAP . . . C 2 34.605 139.339 81.392 1 154.57 ? C3B NAP 3001 A 1 
HETATM 9 O O3B NAP . . . C 2 34.033 140.494 81.97 1 123.84 ? O3B NAP 3001 A 1 
HETATM 10 C C2B NAP . . . C 2 33.496 138.424 80.949 1 179.02 ? C2B NAP 3001 A 1 
HETATM 11 O O2B NAP . . . C 2 32.296 139.139 80.937 1 186.44 ? O2B NAP 3001 A 1 
HETATM 12 C C1B NAP . . . C 2 33.719 138.121 79.489 1 169.86 ? C1B NAP 3001 A 1 
HETATM 13 N N9A NAP . . . C 2 33.709 136.663 79.402 1 162.53 ? N9A NAP 3001 A 1 
HETATM 14 C C8A NAP . . . C 2 32.85 135.897 78.661 1 132.85 ? C8A NAP 3001 A 1 
HETATM 15 N N7A NAP . . . C 2 33.154 134.595 78.868 1 120.72 ? N7A NAP 3001 A 1 
HETATM 16 C C5A NAP . . . C 2 34.194 134.527 79.726 1 181.91 ? C5A NAP 3001 A 1 
HETATM 17 C C6A NAP . . . C 2 34.89 133.447 80.251 1 189.18 ? C6A NAP 3001 A 1 
HETATM 18 N N6A NAP . . . C 2 34.518 132.21 79.9 1 134.17 ? N6A NAP 3001 A 1 
HETATM 19 N N1A NAP . . . C 2 35.952 133.689 81.125 1 167.1 ? N1A NAP 3001 A 1 
HETATM 20 C C2A NAP . . . C 2 36.312 134.99 81.473 1 113.31 ? C2A NAP 3001 A 1 
HETATM 21 N N3A NAP . . . C 2 35.591 136.065 80.946 1 107.37 ? N3A NAP 3001 A 1 
HETATM 22 C C4A NAP . . . C 2 34.553 135.826 80.086 1 163.26 ? C4A NAP 3001 A 1 
HETATM 23 O O3 NAP . . . C 2 37.955 142.34 80.771 1 122.02 ? O3 NAP 3001 A 1 
HETATM 24 P PN NAP . . . C 2 39.069 143.377 80.226 1 116.35 ? PN NAP 3001 A 1 
HETATM 25 O O1N NAP . . . C 2 38.373 144.664 80.066 1 139.56 ? O1N NAP 3001 A 1 
HETATM 26 O O2N NAP . . . C 2 40.308 143.268 81.038 1 100.8 ? O2N NAP 3001 A 1 
HETATM 27 O O5D NAP . . . C 2 39.427 142.837 78.758 1 103.03 ? O5D NAP 3001 A 1 
HETATM 28 C C5D NAP . . . C 2 38.392 142.48 77.867 1 129.23 ? C5D NAP 3001 A 1 
HETATM 29 C C4D NAP . . . C 2 38.973 141.868 76.594 1 100.8 ? C4D NAP 3001 A 1 
HETATM 30 O O4D NAP . . . C 2 39.637 142.876 75.868 1 102.14 ? O4D NAP 3001 A 1 
HETATM 31 C C3D NAP . . . C 2 40.003 140.786 76.882 1 100.8 ? C3D NAP 3001 A 1 
HETATM 32 O O3D NAP . . . C 2 39.623 139.596 76.219 1 124.72 ? O3D NAP 3001 A 1 
HETATM 33 C C2D NAP . . . C 2 41.332 141.352 76.385 1 101.21 ? C2D NAP 3001 A 1 
HETATM 34 O O2D NAP . . . C 2 42.093 140.405 75.669 1 110.93 ? O2D NAP 3001 A 1 
HETATM 35 C C1D NAP . . . C 2 40.924 142.472 75.459 1 100.8 ? C1D NAP 3001 A 1 
HETATM 36 N N1N NAP . . . C 2 41.792 143.637 75.613 1 122.28 ? N1N NAP 3001 A 1 
HETATM 37 C C2N NAP . . . C 2 42.458 144.143 74.492 1 142.21 ? C2N NAP 3001 A 1 
HETATM 38 C C3N NAP . . . C 2 43.29 145.243 74.61 1 100.8 ? C3N NAP 3001 A 1 
HETATM 39 C C7N NAP . . . C 2 44.033 145.786 73.395 1 100.8 ? C7N NAP 3001 A 1 
HETATM 40 O O7N NAP . . . C 2 44.834 146.718 73.488 1 113.31 ? O7N NAP 3001 A 1 
HETATM 41 N N7N NAP . . . C 2 43.703 145.241 72.229 1 100.8 ? N7N NAP 3001 A 1 
HETATM 42 C C4N NAP . . . C 2 43.402 145.844 75.865 1 100.8 ? C4N NAP 3001 A 1 
HETATM 43 C C5N NAP . . . C 2 42.725 145.345 76.982 1 100.8 ? C5N NAP 3001 A 1 
HETATM 44 C C6N NAP . . . C 2 41.906 144.237 76.863 1 100.8 ? C6N NAP 3001 A 1 
HETATM 45 P P2B NAP . . . C 2 30.9 138.352 80.906 1 138.25 ? P2B NAP 3001 A 1 
HETATM 46 O O1X NAP . . . C 2 29.869 139.363 81.376 1 100.8 ? O1X NAP 3001 A 1 
HETATM 47 O O2X NAP . . . C 2 30.612 137.863 79.504 1 100.8 ? O2X NAP 3001 A 1 
HETATM 48 O O3X NAP . . . C 2 30.959 137.14 81.81 1 136.64 ? O3X NAP 3001 A 1 
#
_model_server_stats.io_time_ms              111 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    290 
_model_server_stats.query_time_ms           366 
_model_server_stats.encode_time_ms          56 
_model_server_stats.element_count           48 
#