data_2OBY
#
_model_server_result.job_id            sU21SxPI5vuYntLU5S76bA 
_model_server_result.datetime_utc      '2024-11-22 17:12:13' 
_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          2oby 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1402}' 
#
_entry.id    2OBY 
#
_exptl.entry_id    2OBY 
_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    5 
_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            2OBY 
_cell.length_a            68.354 
_cell.length_b            184.359 
_cell.length_c            318.047 
_cell.Z_PDB               40 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2OBY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
? dimeric 2 author_defined_assembly 3 
? dimeric 2 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,F,G,K 1 1 
C,H,L 2 1,2 
D,I 3 1,3 
E,J,M 4 1,4 
#
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' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
3 'crystal symmetry operation' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -159.0235 
4 'crystal symmetry operation' 3_654 -x+1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 68.354 0 -159.0235 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J 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                     2OBY 
_atom_sites.fract_transf_matrix[1][1]    0.01463 
_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]    0.005424 
_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]    0.003144 
_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
F 2 NAP A 1 1400 400 NAP NAP . 
G 2 NAP B 1 1401 400 NAP NAP . 
H 2 NAP C 1 1402 400 NAP NAP . 
I 2 NAP D 1 1403 400 NAP NAP . 
J 2 NAP E 1 1404 400 NAP NAP . 
K 3 HOH A 1 401 401 HOH HOH . 
L 3 HOH C 1 402 402 HOH HOH . 
M 3 HOH E 1 403 403 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 . . . H 2 35.65 -2.685 -23.776 1 48.73 ? PA NAP 1402 C 1 
HETATM 2 O O1A NAP . . . H 2 36.696 -3.497 -24.429 1 48.99 ? O1A NAP 1402 C 1 
HETATM 3 O O2A NAP . . . H 2 34.456 -2.574 -24.643 1 48.75 ? O2A NAP 1402 C 1 
HETATM 4 O O5B NAP . . . H 2 36.252 -1.238 -23.42 1 48.47 ? O5B NAP 1402 C 1 
HETATM 5 C C5B NAP . . . H 2 37.237 -1.093 -22.424 1 48.51 ? C5B NAP 1402 C 1 
HETATM 6 C C4B NAP . . . H 2 37.836 0.303 -22.525 1 48.44 ? C4B NAP 1402 C 1 
HETATM 7 O O4B NAP . . . H 2 38.421 0.717 -21.308 1 48.19 ? O4B NAP 1402 C 1 
HETATM 8 C C3B NAP . . . H 2 38.946 0.399 -23.555 1 48.54 ? C3B NAP 1402 C 1 
HETATM 9 O O3B NAP . . . H 2 38.426 0.556 -24.86 1 48.77 ? O3B NAP 1402 C 1 
HETATM 10 C C2B NAP . . . H 2 39.742 1.592 -23.061 1 48.39 ? C2B NAP 1402 C 1 
HETATM 11 O O2B NAP . . . H 2 39.277 2.777 -23.668 1 48.43 ? O2B NAP 1402 C 1 
HETATM 12 C C1B NAP . . . H 2 39.493 1.609 -21.556 1 48.4 ? C1B NAP 1402 C 1 
HETATM 13 N N9A NAP . . . H 2 40.697 1.204 -20.798 1 48.45 ? N9A NAP 1402 C 1 
HETATM 14 C C8A NAP . . . H 2 41.383 0.024 -20.92 1 48.4 ? C8A NAP 1402 C 1 
HETATM 15 N N7A NAP . . . H 2 42.415 0.032 -20.047 1 48.31 ? N7A NAP 1402 C 1 
HETATM 16 C C5A NAP . . . H 2 42.408 1.201 -19.37 1 48.33 ? C5A NAP 1402 C 1 
HETATM 17 C C6A NAP . . . H 2 43.235 1.722 -18.372 1 48.45 ? C6A NAP 1402 C 1 
HETATM 18 N N6A NAP . . . H 2 44.273 1.026 -17.913 1 48.41 ? N6A NAP 1402 C 1 
HETATM 19 N N1A NAP . . . H 2 42.973 2.976 -17.856 1 48.41 ? N1A NAP 1402 C 1 
HETATM 20 C C2A NAP . . . H 2 41.896 3.701 -18.331 1 48.46 ? C2A NAP 1402 C 1 
HETATM 21 N N3A NAP . . . H 2 41.083 3.175 -19.321 1 48.35 ? N3A NAP 1402 C 1 
HETATM 22 C C4A NAP . . . H 2 41.332 1.946 -19.834 1 48.23 ? C4A NAP 1402 C 1 
HETATM 23 O O3 NAP . . . H 2 35.262 -3.331 -22.358 1 48.41 ? O3 NAP 1402 C 1 
HETATM 24 P PN NAP . . . H 2 33.844 -3.875 -21.832 1 48.7 ? PN NAP 1402 C 1 
HETATM 25 O O1N NAP . . . H 2 33.688 -5.272 -22.29 1 48.87 ? O1N NAP 1402 C 1 
HETATM 26 O O2N NAP . . . H 2 32.807 -2.884 -22.187 1 48.86 ? O2N NAP 1402 C 1 
HETATM 27 O O5D NAP . . . H 2 33.981 -3.899 -20.226 1 48.49 ? O5D NAP 1402 C 1 
HETATM 28 C C5D NAP . . . H 2 34.503 -2.812 -19.496 1 48.38 ? C5D NAP 1402 C 1 
HETATM 29 C C4D NAP . . . H 2 34.959 -3.262 -18.111 1 48.52 ? C4D NAP 1402 C 1 
HETATM 30 O O4D NAP . . . H 2 33.85 -3.708 -17.356 1 48.73 ? O4D NAP 1402 C 1 
HETATM 31 C C3D NAP . . . H 2 35.945 -4.422 -18.145 1 48.69 ? C3D NAP 1402 C 1 
HETATM 32 O O3D NAP . . . H 2 36.974 -4.214 -17.209 1 48.86 ? O3D NAP 1402 C 1 
HETATM 33 C C2D NAP . . . H 2 35.139 -5.631 -17.735 1 48.6 ? C2D NAP 1402 C 1 
HETATM 34 O O2D NAP . . . H 2 35.908 -6.58 -17.038 1 48.68 ? O2D NAP 1402 C 1 
HETATM 35 C C1D NAP . . . H 2 34.077 -5.012 -16.85 1 48.72 ? C1D NAP 1402 C 1 
HETATM 36 N N1N NAP . . . H 2 32.846 -5.825 -16.849 1 49.05 ? N1N NAP 1402 C 1 
HETATM 37 C C2N NAP . . . H 2 32.526 -6.508 -15.707 1 49.27 ? C2N NAP 1402 C 1 
HETATM 38 C C3N NAP . . . H 2 31.374 -7.281 -15.653 1 49.26 ? C3N NAP 1402 C 1 
HETATM 39 C C7N NAP . . . H 2 30.864 -7.737 -14.324 1 49.27 ? C7N NAP 1402 C 1 
HETATM 40 O O7N NAP . . . H 2 30.271 -9.012 -14.243 1 50.05 ? O7N NAP 1402 C 1 
HETATM 41 N N7N NAP . . . H 2 30.984 -6.933 -13.266 1 48.88 ? N7N NAP 1402 C 1 
HETATM 42 C C4N NAP . . . H 2 30.554 -7.377 -16.771 1 49.14 ? C4N NAP 1402 C 1 
HETATM 43 C C5N NAP . . . H 2 30.891 -6.682 -17.931 1 49.22 ? C5N NAP 1402 C 1 
HETATM 44 C C6N NAP . . . H 2 32.046 -5.904 -17.961 1 49.1 ? C6N NAP 1402 C 1 
HETATM 45 P P2B NAP . . . H 2 39.843 4.228 -23.265 1 48.14 ? P2B NAP 1402 C 1 
HETATM 46 O O1X NAP . . . H 2 41.25 4.043 -22.75 1 48.17 ? O1X NAP 1402 C 1 
HETATM 47 O O2X NAP . . . H 2 39.833 5.135 -24.47 1 48.15 ? O2X NAP 1402 C 1 
HETATM 48 O O3X NAP . . . H 2 38.965 4.838 -22.2 1 48.44 ? O3X NAP 1402 C 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           48 
#