data_7YB1
#
_model_server_result.job_id            E0fi436s2btcw8IQnbg76w 
_model_server_result.datetime_utc      '2024-10-12 19:23:06' 
_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          7yb1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":301}' 
#
_entry.id    7YB1 
#
_exptl.entry_id    7YB1 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            7YB1 
_cell.length_a            124.624 
_cell.length_b            124.624 
_cell.length_c            134.213 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7YB1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
B,C,D,F,G,H,J,K,L 1 1 
A,E,I 1 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 5_455 -x-1/2,y+1/2,-z+1/4 -1 0 0 0 1 0 0 0 -1 -62.312 62.312 33.55325 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H 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 237 n n 
PA O2A NAP sing 238 n n 
PA O5B NAP sing 239 n n 
PA O3 NAP sing 240 n n 
O2A HOA2 NAP sing 241 n n 
O5B C5B NAP sing 242 n n 
C5B C4B NAP sing 243 n n 
C5B H51A NAP sing 244 n n 
C5B H52A NAP sing 245 n n 
C4B O4B NAP sing 246 n n 
C4B C3B NAP sing 247 n n 
C4B H4B NAP sing 248 n n 
O4B C1B NAP sing 249 n n 
C3B O3B NAP sing 250 n n 
C3B C2B NAP sing 251 n n 
C3B H3B NAP sing 252 n n 
O3B HO3A NAP sing 253 n n 
C2B O2B NAP sing 254 n n 
C2B C1B NAP sing 255 n n 
C2B H2B NAP sing 256 n n 
O2B P2B NAP sing 257 n n 
C1B N9A NAP sing 258 n n 
C1B H1B NAP sing 259 n n 
N9A C8A NAP sing 260 n y 
N9A C4A NAP sing 261 n y 
C8A N7A NAP doub 262 n y 
C8A H8A NAP sing 263 n n 
N7A C5A NAP sing 264 n y 
C5A C6A NAP sing 265 n y 
C5A C4A NAP doub 266 n y 
C6A N6A NAP sing 267 n n 
C6A N1A NAP doub 268 n y 
N6A H61A NAP sing 269 n n 
N6A H62A NAP sing 270 n n 
N1A C2A NAP sing 271 n y 
C2A N3A NAP doub 272 n y 
C2A H2A NAP sing 273 n n 
N3A C4A NAP sing 274 n y 
O3 PN NAP sing 275 n n 
PN O1N NAP doub 276 n n 
PN O2N NAP sing 277 n n 
PN O5D NAP sing 278 n n 
O5D C5D NAP sing 279 n n 
C5D C4D NAP sing 280 n n 
C5D H51N NAP sing 281 n n 
C5D H52N NAP sing 282 n n 
C4D O4D NAP sing 283 n n 
C4D C3D NAP sing 284 n n 
C4D H4D NAP sing 285 n n 
O4D C1D NAP sing 286 n n 
C3D O3D NAP sing 287 n n 
C3D C2D NAP sing 288 n n 
C3D H3D NAP sing 289 n n 
O3D HO3N NAP sing 290 n n 
C2D O2D NAP sing 291 n n 
C2D C1D NAP sing 292 n n 
C2D H2D NAP sing 293 n n 
O2D HO2N NAP sing 294 n n 
C1D N1N NAP sing 295 n n 
C1D H1D NAP sing 296 n n 
N1N C2N NAP sing 297 n y 
N1N C6N NAP doub 298 n y 
C2N C3N NAP doub 299 n y 
C2N H2N NAP sing 300 n n 
C3N C7N NAP sing 301 n n 
C3N C4N NAP sing 302 n y 
C7N O7N NAP doub 303 n n 
C7N N7N NAP sing 304 n n 
N7N H71N NAP sing 305 n n 
N7N H72N NAP sing 306 n n 
C4N C5N NAP doub 307 n y 
C4N H4N NAP sing 308 n n 
C5N C6N NAP sing 309 n y 
C5N H5N NAP sing 310 n n 
C6N H6N NAP sing 311 n n 
P2B O1X NAP doub 312 n n 
P2B O2X NAP sing 313 n n 
P2B O3X NAP sing 314 n n 
O2X HOP2 NAP sing 315 n n 
O3X HOP3 NAP sing 316 n n 
#
_atom_sites.entry_id                     7YB1 
_atom_sites.fract_transf_matrix[1][1]    0.008024 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008024 
_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]    0.007451 
_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 NAP D 1 301 3 NAP NAP . 
F 2 NAP A 1 301 4 NAP NAP . 
G 2 NAP B 1 301 1 NAP NAP . 
H 2 NAP C 1 301 2 NAP NAP . 
I 3 HOH D 1 401 7 HOH HOH . 
I 3 HOH D 2 402 9 HOH HOH . 
I 3 HOH D 3 403 11 HOH HOH . 
J 3 HOH A 1 401 15 HOH HOH . 
J 3 HOH A 2 402 3 HOH HOH . 
J 3 HOH A 3 403 1 HOH HOH . 
J 3 HOH A 4 404 10 HOH HOH . 
J 3 HOH A 5 405 8 HOH HOH . 
J 3 HOH A 6 406 16 HOH HOH . 
J 3 HOH A 7 407 17 HOH HOH . 
J 3 HOH A 8 408 13 HOH HOH . 
J 3 HOH A 9 409 5 HOH HOH . 
K 3 HOH B 1 401 4 HOH HOH . 
K 3 HOH B 2 402 2 HOH HOH . 
K 3 HOH B 3 403 6 HOH HOH . 
L 3 HOH C 1 401 12 HOH HOH . 
L 3 HOH C 2 402 18 HOH HOH . 
#
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 . . . G 2 -11.542 93.074 49.119 1 11.9 ? PA NAP 301 B 1 
HETATM 2 O O1A NAP . . . G 2 -11.142 92.318 50.239 1 11.77 ? O1A NAP 301 B 1 
HETATM 3 O O2A NAP . . . G 2 -12.14 94.367 49.364 1 12.05 ? O2A NAP 301 B 1 
HETATM 4 O O5B NAP . . . G 2 -10.232 93.388 48.405 1 12.16 ? O5B NAP 301 B 1 
HETATM 5 C C5B NAP . . . G 2 -10.172 94.461 47.502 1 12.38 ? C5B NAP 301 B 1 
HETATM 6 C C4B NAP . . . G 2 -9.147 94.333 46.412 1 12.52 ? C4B NAP 301 B 1 
HETATM 7 O O4B NAP . . . G 2 -9.424 95.453 45.66 1 12.25 ? O4B NAP 301 B 1 
HETATM 8 C C3B NAP . . . G 2 -7.764 94.601 46.855 1 12.91 ? C3B NAP 301 B 1 
HETATM 9 O O3B NAP . . . G 2 -6.991 93.844 46.003 1 13.05 ? O3B NAP 301 B 1 
HETATM 10 C C2B NAP . . . G 2 -7.477 96.009 46.448 1 13.09 ? C2B NAP 301 B 1 
HETATM 11 O O2B NAP . . . G 2 -6.125 96.389 46.215 1 14.29 ? O2B NAP 301 B 1 
HETATM 12 C C1B NAP . . . G 2 -8.261 96.09 45.211 1 12.34 ? C1B NAP 301 B 1 
HETATM 13 N N9A NAP . . . G 2 -8.399 97.503 44.851 1 11.76 ? N9A NAP 301 B 1 
HETATM 14 C C8A NAP . . . G 2 -9.097 98.423 45.466 1 11.54 ? C8A NAP 301 B 1 
HETATM 15 N N7A NAP . . . G 2 -8.99 99.601 44.88 1 11.28 ? N7A NAP 301 B 1 
HETATM 16 C C5A NAP . . . G 2 -8.193 99.449 43.845 1 11.24 ? C5A NAP 301 B 1 
HETATM 17 C C6A NAP . . . G 2 -7.663 100.294 42.763 1 10.99 ? C6A NAP 301 B 1 
HETATM 18 N N6A NAP . . . G 2 -7.934 101.598 42.642 1 10.54 ? N6A NAP 301 B 1 
HETATM 19 N N1A NAP . . . G 2 -6.865 99.715 41.882 1 10.81 ? N1A NAP 301 B 1 
HETATM 20 C C2A NAP . . . G 2 -6.569 98.447 41.933 1 10.75 ? C2A NAP 301 B 1 
HETATM 21 N N3A NAP . . . G 2 -7.009 97.634 42.869 1 10.83 ? N3A NAP 301 B 1 
HETATM 22 C C4A NAP . . . G 2 -7.805 98.06 43.839 1 11.31 ? C4A NAP 301 B 1 
HETATM 23 O O3 NAP . . . G 2 -12.325 92.334 47.988 1 11.84 ? O3 NAP 301 B 1 
HETATM 24 P PN NAP . . . G 2 -12.84 90.887 47.73 1 11.68 ? PN NAP 301 B 1 
HETATM 25 O O1N NAP . . . G 2 -13.56 90.196 48.793 1 11.65 ? O1N NAP 301 B 1 
HETATM 26 O O2N NAP . . . G 2 -11.839 90.221 46.965 1 11.91 ? O2N NAP 301 B 1 
HETATM 27 O O5D NAP . . . G 2 -13.858 91.099 46.614 1 12.29 ? O5D NAP 301 B 1 
HETATM 28 C C5D NAP . . . G 2 -13.438 91.857 45.532 1 12.87 ? C5D NAP 301 B 1 
HETATM 29 C C4D NAP . . . G 2 -14.271 91.696 44.282 1 13.03 ? C4D NAP 301 B 1 
HETATM 30 O O4D NAP . . . G 2 -15.27 90.722 44.357 1 13.15 ? O4D NAP 301 B 1 
HETATM 31 C C3D NAP . . . G 2 -15.038 92.919 43.968 1 13.23 ? C3D NAP 301 B 1 
HETATM 32 O O3D NAP . . . G 2 -15.129 92.779 42.594 1 13.09 ? O3D NAP 301 B 1 
HETATM 33 C C2D NAP . . . G 2 -16.407 92.717 44.5 1 13.35 ? C2D NAP 301 B 1 
HETATM 34 O O2D NAP . . . G 2 -17.366 93.546 43.843 1 13.15 ? O2D NAP 301 B 1 
HETATM 35 C C1D NAP . . . G 2 -16.586 91.244 44.268 1 13.37 ? C1D NAP 301 B 1 
HETATM 36 N N1N NAP . . . G 2 -17.433 90.659 45.285 1 13.2 ? N1N NAP 301 B 1 
HETATM 37 C C2N NAP . . . G 2 -16.922 90.282 46.437 1 13.14 ? C2N NAP 301 B 1 
HETATM 38 C C3N NAP . . . G 2 -17.681 89.732 47.417 1 13.25 ? C3N NAP 301 B 1 
HETATM 39 C C7N NAP . . . G 2 -17.126 89.375 48.741 1 13.34 ? C7N NAP 301 B 1 
HETATM 40 O O7N NAP . . . G 2 -17.877 89.051 49.572 1 13.6 ? O7N NAP 301 B 1 
HETATM 41 N N7N NAP . . . G 2 -15.875 89.503 49.093 1 13.32 ? N7N NAP 301 B 1 
HETATM 42 C C4N NAP . . . G 2 -19.008 89.572 47.176 1 13.22 ? C4N NAP 301 B 1 
HETATM 43 C C5N NAP . . . G 2 -19.537 89.942 45.976 1 13.05 ? C5N NAP 301 B 1 
HETATM 44 C C6N NAP . . . G 2 -18.697 90.493 45.043 1 13.11 ? C6N NAP 301 B 1 
HETATM 45 P P2B NAP . . . G 2 -5.277 97.224 47.227 1 14.95 ? P2B NAP 301 B 1 
HETATM 46 O O1X NAP . . . G 2 -4.129 96.421 46.986 1 15.41 ? O1X NAP 301 B 1 
HETATM 47 O O2X NAP . . . G 2 -5.12 98.62 46.947 1 14.15 ? O2X NAP 301 B 1 
HETATM 48 O O3X NAP . . . G 2 -6.035 97.111 48.44 1 14.52 ? O3X NAP 301 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           299 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           48 
#