data_8S65
#
_model_server_result.job_id            B9yKuHTKoGvLDHDRF3gGeg 
_model_server_result.datetime_utc      '2025-09-06 08:04:37' 
_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          8s65 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    8S65 
#
loop_
_exptl.entry_id
_exptl.method
8S65 'X-RAY DIFFRACTION' 
8S65 'SOLUTION SCATTERING' 
#
_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    2 
_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         120 
_cell.entry_id            8S65 
_cell.length_a            159.524 
_cell.length_b            159.524 
_cell.length_c            75.873 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8S65 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    'P 65' 
_symmetry.space_group_name_H-M     'P 65' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,M 1 1 
B,I,J,K,L,N 2 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 I N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 A O ILE 55 A ILE 55 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc2 A O PHE 75 A PHE 75 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? 
metalc ? metalc3 A O ARG 76 A ARG 76 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? 
metalc ? metalc4 A O GLU 398 A GLU 398 1_555 G MG MG . A MG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? 
metalc ? metalc5 C O2N NAP . A NAP 501 1_555 H MG MG . A MG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? 
metalc ? metalc6 B O ILE 55 B ILE 55 1_555 L MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? 
metalc ? metalc7 B O PHE 75 B PHE 75 1_555 L MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc8 B O ARG 76 B ARG 76 1_555 L MG MG . B MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.875 ? 
#
_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 257 n n 
PA O2A NAP sing 258 n n 
PA O5B NAP sing 259 n n 
PA O3 NAP sing 260 n n 
O2A HOA2 NAP sing 261 n n 
O5B C5B NAP sing 262 n n 
C5B C4B NAP sing 263 n n 
C5B H51A NAP sing 264 n n 
C5B H52A NAP sing 265 n n 
C4B O4B NAP sing 266 n n 
C4B C3B NAP sing 267 n n 
C4B H4B NAP sing 268 n n 
O4B C1B NAP sing 269 n n 
C3B O3B NAP sing 270 n n 
C3B C2B NAP sing 271 n n 
C3B H3B NAP sing 272 n n 
O3B HO3A NAP sing 273 n n 
C2B O2B NAP sing 274 n n 
C2B C1B NAP sing 275 n n 
C2B H2B NAP sing 276 n n 
O2B P2B NAP sing 277 n n 
C1B N9A NAP sing 278 n n 
C1B H1B NAP sing 279 n n 
N9A C8A NAP sing 280 n y 
N9A C4A NAP sing 281 n y 
C8A N7A NAP doub 282 n y 
C8A H8A NAP sing 283 n n 
N7A C5A NAP sing 284 n y 
C5A C6A NAP sing 285 n y 
C5A C4A NAP doub 286 n y 
C6A N6A NAP sing 287 n n 
C6A N1A NAP doub 288 n y 
N6A H61A NAP sing 289 n n 
N6A H62A NAP sing 290 n n 
N1A C2A NAP sing 291 n y 
C2A N3A NAP doub 292 n y 
C2A H2A NAP sing 293 n n 
N3A C4A NAP sing 294 n y 
O3 PN NAP sing 295 n n 
PN O1N NAP doub 296 n n 
PN O2N NAP sing 297 n n 
PN O5D NAP sing 298 n n 
O5D C5D NAP sing 299 n n 
C5D C4D NAP sing 300 n n 
C5D H51N NAP sing 301 n n 
C5D H52N NAP sing 302 n n 
C4D O4D NAP sing 303 n n 
C4D C3D NAP sing 304 n n 
C4D H4D NAP sing 305 n n 
O4D C1D NAP sing 306 n n 
C3D O3D NAP sing 307 n n 
C3D C2D NAP sing 308 n n 
C3D H3D NAP sing 309 n n 
O3D HO3N NAP sing 310 n n 
C2D O2D NAP sing 311 n n 
C2D C1D NAP sing 312 n n 
C2D H2D NAP sing 313 n n 
O2D HO2N NAP sing 314 n n 
C1D N1N NAP sing 315 n n 
C1D H1D NAP sing 316 n n 
N1N C2N NAP sing 317 n y 
N1N C6N NAP doub 318 n y 
C2N C3N NAP doub 319 n y 
C2N H2N NAP sing 320 n n 
C3N C7N NAP sing 321 n n 
C3N C4N NAP sing 322 n y 
C7N O7N NAP doub 323 n n 
C7N N7N NAP sing 324 n n 
N7N H71N NAP sing 325 n n 
N7N H72N NAP sing 326 n n 
C4N C5N NAP doub 327 n y 
C4N H4N NAP sing 328 n n 
C5N C6N NAP sing 329 n y 
C5N H5N NAP sing 330 n n 
C6N H6N NAP sing 331 n n 
P2B O1X NAP doub 332 n n 
P2B O2X NAP sing 333 n n 
P2B O3X NAP sing 334 n n 
O2X HOP2 NAP sing 335 n n 
O3X HOP3 NAP sing 336 n n 
#
_atom_sites.entry_id                     8S65 
_atom_sites.fract_transf_matrix[1][1]    0.006269 
_atom_sites.fract_transf_matrix[1][2]    0.003619 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007238 
_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]    0.01318 
_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 1 501 501 NAP NAP . 
D 3 FOM A 1 502 504 FOM FOM . 
E 4 CL A 1 503 2 CL CL . 
F 5 MG A 1 504 1 MG MG . 
G 5 MG A 1 505 7 MG MG . 
H 5 MG A 1 506 8 MG MG . 
I 2 NAP B 1 501 501 NAP NAP . 
J 3 FOM B 1 502 502 FOM FOM . 
K 4 CL B 1 503 3 CL CL . 
L 5 MG B 1 504 3 MG MG . 
M 6 HOH A 1 601 1 HOH HOH . 
M 6 HOH A 2 602 9 HOH HOH . 
M 6 HOH A 3 603 8 HOH HOH . 
M 6 HOH A 4 604 5 HOH HOH . 
M 6 HOH A 5 605 6 HOH HOH . 
N 6 HOH B 1 601 4 HOH HOH . 
N 6 HOH B 2 602 7 HOH HOH . 
N 6 HOH B 3 603 2 HOH HOH . 
N 6 HOH B 4 604 3 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 . . . C 2 -4.123 48.757 4.537 1 69.58 ? PA NAP 501 A 1 
HETATM 2 O O1A NAP . . . C 2 -4.383 50.079 5.224 1 75.18 ? O1A NAP 501 A 1 
HETATM 3 O O2A NAP . . . C 2 -4.341 47.547 5.431 1 74.83 ? O2A NAP 501 A 1 
HETATM 4 O O5B NAP . . . C 2 -5.031 48.698 3.136 1 67.46 ? O5B NAP 501 A 1 
HETATM 5 C C5B NAP . . . C 2 -5.245 47.475 2.49 1 68.12 ? C5B NAP 501 A 1 
HETATM 6 C C4B NAP . . . C 2 -5.988 47.742 1.144 1 65.22 ? C4B NAP 501 A 1 
HETATM 7 O O4B NAP . . . C 2 -5.851 46.696 0.346 1 72.76 ? O4B NAP 501 A 1 
HETATM 8 C C3B NAP . . . C 2 -7.506 47.872 1.427 1 62.94 ? C3B NAP 501 A 1 
HETATM 9 O O3B NAP . . . C 2 -8.097 48.785 0.613 1 55.51 ? O3B NAP 501 A 1 
HETATM 10 C C2B NAP . . . C 2 -7.988 46.418 1.139 1 64.62 ? C2B NAP 501 A 1 
HETATM 11 O O2B NAP . . . C 2 -9.477 46.385 1.053 1 63.29 ? O2B NAP 501 A 1 
HETATM 12 C C1B NAP . . . C 2 -7.321 46.145 0.033 1 63.38 ? C1B NAP 501 A 1 
HETATM 13 N N9A NAP . . . C 2 -7.217 44.736 -0.127 1 63.31 ? N9A NAP 501 A 1 
HETATM 14 C C8A NAP . . . C 2 -6.917 43.725 0.697 1 70.88 ? C8A NAP 501 A 1 
HETATM 15 N N7A NAP . . . C 2 -7.035 42.574 0.009 1 69.47 ? N7A NAP 501 A 1 
HETATM 16 C C5A NAP . . . C 2 -7.414 42.876 -1.235 1 65.29 ? C5A NAP 501 A 1 
HETATM 17 C C6A NAP . . . C 2 -7.667 42.067 -2.293 1 57.76 ? C6A NAP 501 A 1 
HETATM 18 N N6A NAP . . . C 2 -7.618 40.646 -2.407 1 82.71 ? N6A NAP 501 A 1 
HETATM 19 N N1A NAP . . . C 2 -8.042 42.578 -3.441 1 65.05 ? N1A NAP 501 A 1 
HETATM 20 C C2A NAP . . . C 2 -8.181 43.93 -3.543 1 63.91 ? C2A NAP 501 A 1 
HETATM 21 N N3A NAP . . . C 2 -7.928 44.76 -2.499 1 62.52 ? N3A NAP 501 A 1 
HETATM 22 C C4A NAP . . . C 2 -7.533 44.214 -1.334 1 64.92 ? C4A NAP 501 A 1 
HETATM 23 O O3 NAP . . . C 2 -2.608 48.854 3.937 1 84.49 ? O3 NAP 501 A 1 
HETATM 24 P PN NAP . . . C 2 -1.718 50.245 3.812 1 78.83 ? PN NAP 501 A 1 
HETATM 25 O O1N NAP . . . C 2 -1.429 50.844 5.18 1 74.77 ? O1N NAP 501 A 1 
HETATM 26 O O2N NAP . . . C 2 -2.366 51.282 2.915 1 71.52 ? O2N NAP 501 A 1 
HETATM 27 O O5D NAP . . . C 2 -0.364 49.672 3.076 1 89.96 ? O5D NAP 501 A 1 
HETATM 28 C C5D NAP . . . C 2 -0.515 49.36 1.725 1 79.84 ? C5D NAP 501 A 1 
HETATM 29 C C4D NAP . . . C 2 0.842 48.85 1.204 1 87.05 ? C4D NAP 501 A 1 
HETATM 30 O O4D NAP . . . C 2 1.53 49.932 0.926 1 84.47 ? O4D NAP 501 A 1 
HETATM 31 C C3D NAP . . . C 2 1.713 48.104 2.227 1 92.12 ? C3D NAP 501 A 1 
HETATM 32 O O3D NAP . . . C 2 2.545 47.28 1.514 1 83.78 ? O3D NAP 501 A 1 
HETATM 33 C C2D NAP . . . C 2 2.602 49.154 2.921 1 83.95 ? C2D NAP 501 A 1 
HETATM 34 O O2D NAP . . . C 2 3.768 48.367 3.44 1 84.43 ? O2D NAP 501 A 1 
HETATM 35 C C1D NAP . . . C 2 2.797 50.034 1.969 1 92.76 ? C1D NAP 501 A 1 
HETATM 36 N N1N NAP . . . C 2 2.99 51.338 2.63 1 97.58 ? N1N NAP 501 A 1 
HETATM 37 C C2N NAP . . . C 2 2.097 51.901 3.509 1 89.13 ? C2N NAP 501 A 1 
HETATM 38 C C3N NAP . . . C 2 2.33 53.122 4.112 1 87.06 ? C3N NAP 501 A 1 
HETATM 39 C C7N NAP . . . C 2 1.283 53.675 5.1 1 83.39 ? C7N NAP 501 A 1 
HETATM 40 O O7N NAP . . . C 2 0.273 53.089 5.309 1 89.08 ? O7N NAP 501 A 1 
HETATM 41 N N7N NAP . . . C 2 1.52 54.888 5.865 1 87.43 ? N7N NAP 501 A 1 
HETATM 42 C C4N NAP . . . C 2 3.48 53.785 3.817 1 89.35 ? C4N NAP 501 A 1 
HETATM 43 C C5N NAP . . . C 2 4.381 53.233 2.953 1 92.23 ? C5N NAP 501 A 1 
HETATM 44 C C6N NAP . . . C 2 4.137 52.007 2.359 1 85 ? C6N NAP 501 A 1 
HETATM 45 P P2B NAP . . . C 2 -10.328 46.111 2.454 1 69.9 ? P2B NAP 501 A 1 
HETATM 46 O O1X NAP . . . C 2 -10.512 44.629 2.643 1 81.97 ? O1X NAP 501 A 1 
HETATM 47 O O2X NAP . . . C 2 -9.68 46.599 3.712 1 75.48 ? O2X NAP 501 A 1 
HETATM 48 O O3X NAP . . . C 2 -11.638 46.803 2.288 1 83.04 ? O3X NAP 501 A 1 
HETATM 49 H H51A NAP . . . C 2 -4.394 47.046 2.314 1 81.59 ? H51A NAP 501 A 1 
HETATM 50 H H52A NAP . . . C 2 -5.787 46.9 3.053 1 81.59 ? H52A NAP 501 A 1 
HETATM 51 H H4B NAP . . . C 2 -5.656 48.538 0.699 1 78.1 ? H4B NAP 501 A 1 
HETATM 52 H H3B NAP . . . C 2 -7.694 48.148 2.338 1 75.37 ? H3B NAP 501 A 1 
HETATM 53 H HO3A NAP . . . C 2 -8.654 49.225 1.085 1 66.45 ? HO3A NAP 501 A 1 
HETATM 54 H H2B NAP . . . C 2 -7.757 45.757 1.811 1 77.38 ? H2B NAP 501 A 1 
HETATM 55 H H1B NAP . . . C 2 -7.735 46.566 -0.737 1 75.89 ? H1B NAP 501 A 1 
HETATM 56 H H8A NAP . . . C 2 -6.67 43.804 1.59 1 84.89 ? H8A NAP 501 A 1 
HETATM 57 H H61A NAP . . . C 2 -6.875 40.254 -2.578 1 99.09 ? H61A NAP 501 A 1 
HETATM 58 H H62A NAP . . . C 2 -8.336 40.185 -2.291 1 99.09 ? H62A NAP 501 A 1 
HETATM 59 H H2A NAP . . . C 2 -8.459 44.295 -4.352 1 76.53 ? H2A NAP 501 A 1 
HETATM 60 H H51N NAP . . . C 2 -0.781 50.151 1.231 1 95.65 ? H51N NAP 501 A 1 
HETATM 61 H H52N NAP . . . C 2 -1.189 48.67 1.619 1 95.65 ? H52N NAP 501 A 1 
HETATM 62 H H4D NAP . . . C 2 0.703 48.228 0.473 1 104.3 ? H4D NAP 501 A 1 
HETATM 63 H H3D NAP . . . C 2 1.156 47.655 2.881 1 110.38 ? H3D NAP 501 A 1 
HETATM 64 H HO3N NAP . . . C 2 2.212 46.504 1.418 1 100.37 ? HO3N NAP 501 A 1 
HETATM 65 H H2D NAP . . . C 2 2.24 49.67 3.658 1 100.57 ? H2D NAP 501 A 1 
HETATM 66 H HO2N NAP . . . C 2 3.599 48.067 4.228 1 101.16 ? HO2N NAP 501 A 1 
HETATM 67 H H1D NAP . . . C 2 3.564 49.833 1.411 1 111.15 ? H1D NAP 501 A 1 
HETATM 68 H H2N NAP . . . C 2 1.31 51.446 3.704 1 106.79 ? H2N NAP 501 A 1 
HETATM 69 H H71N NAP . . . C 2 0.919 55.161 6.422 1 104.75 ? H71N NAP 501 A 1 
HETATM 70 H H72N NAP . . . C 2 2.243 55.338 5.756 1 104.75 ? H72N NAP 501 A 1 
HETATM 71 H H4N NAP . . . C 2 3.653 54.614 4.202 1 107.05 ? H4N NAP 501 A 1 
HETATM 72 H H5N NAP . . . C 2 5.169 53.687 2.761 1 110.52 ? H5N NAP 501 A 1 
HETATM 73 H H6N NAP . . . C 2 4.761 51.642 1.774 1 101.84 ? H6N NAP 501 A 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           73 
#