data_2PKQ
#
_model_server_result.job_id            Jdj84SNJ04CrWKF5iCY2IQ 
_model_server_result.datetime_utc      '2024-11-04 22:49:36' 
_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          2pkq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":364}' 
#
_entry.id    2PKQ 
#
_exptl.entry_id    2PKQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              745.421 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          102.52 
_cell.angle_gamma         90 
_cell.entry_id            2PKQ 
_cell.length_a            186.147 
_cell.length_b            215.687 
_cell.length_c            81.469 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2PKQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
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,PQS tetrameric 4 author_and_software_defined_assembly 1 
PQS tetrameric 4 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,G,H,I,J,K,L,M,N,O,P,Q,R,S 1 1 
E,F,T,U,V,W,X,Y,Z,AA 2 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' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -17.660882 0 79.531699 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 H N N 
? 4 K N N 
? 4 O N N 
? 4 S N N 
? 4 W N N 
? 4 AA 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
disulf ? disulf1 A SG CYS 355 O CYS 349 1_555 A SG CYS 364 O CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf2 F SG CYS 355 T CYS 349 1_555 F SG CYS 364 T CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
#
_chem_comp.formula           'C21 H30 N7 O17 P3' 
_chem_comp.formula_weight    745.421 
_chem_comp.id                NDP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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 NDP doub 235 n n 
PA O2A NDP sing 236 n n 
PA O5B NDP sing 237 n n 
PA O3 NDP sing 238 n n 
O2A HOA2 NDP sing 239 n n 
O5B C5B NDP sing 240 n n 
C5B C4B NDP sing 241 n n 
C5B H51A NDP sing 242 n n 
C5B H52A NDP sing 243 n n 
C4B O4B NDP sing 244 n n 
C4B C3B NDP sing 245 n n 
C4B H4B NDP sing 246 n n 
O4B C1B NDP sing 247 n n 
C3B O3B NDP sing 248 n n 
C3B C2B NDP sing 249 n n 
C3B H3B NDP sing 250 n n 
O3B HO3A NDP sing 251 n n 
C2B O2B NDP sing 252 n n 
C2B C1B NDP sing 253 n n 
C2B H2B NDP sing 254 n n 
O2B P2B NDP sing 255 n n 
C1B N9A NDP sing 256 n n 
C1B H1B NDP sing 257 n n 
N9A C8A NDP sing 258 n y 
N9A C4A NDP sing 259 n y 
C8A N7A NDP doub 260 n y 
C8A H8A NDP sing 261 n n 
N7A C5A NDP sing 262 n y 
C5A C6A NDP sing 263 n y 
C5A C4A NDP doub 264 n y 
C6A N6A NDP sing 265 n n 
C6A N1A NDP doub 266 n y 
N6A H61A NDP sing 267 n n 
N6A H62A NDP sing 268 n n 
N1A C2A NDP sing 269 n y 
C2A N3A NDP doub 270 n y 
C2A H2A NDP sing 271 n n 
N3A C4A NDP sing 272 n y 
O3 PN NDP sing 273 n n 
PN O1N NDP doub 274 n n 
PN O2N NDP sing 275 n n 
PN O5D NDP sing 276 n n 
O2N H21N NDP sing 277 n n 
O5D C5D NDP sing 278 n n 
C5D C4D NDP sing 279 n n 
C5D H51N NDP sing 280 n n 
C5D H52N NDP sing 281 n n 
C4D O4D NDP sing 282 n n 
C4D C3D NDP sing 283 n n 
C4D H4D NDP sing 284 n n 
O4D C1D NDP sing 285 n n 
C3D O3D NDP sing 286 n n 
C3D C2D NDP sing 287 n n 
C3D H3D NDP sing 288 n n 
O3D HO3N NDP sing 289 n n 
C2D O2D NDP sing 290 n n 
C2D C1D NDP sing 291 n n 
C2D H2D NDP sing 292 n n 
O2D HO2N NDP sing 293 n n 
C1D N1N NDP sing 294 n n 
C1D H1D NDP sing 295 n n 
N1N C2N NDP sing 296 n n 
N1N C6N NDP sing 297 n n 
C2N C3N NDP doub 298 n n 
C2N H2N NDP sing 299 n n 
C3N C7N NDP sing 300 n n 
C3N C4N NDP sing 301 n n 
C7N O7N NDP doub 302 n n 
C7N N7N NDP sing 303 n n 
N7N H71N NDP sing 304 n n 
N7N H72N NDP sing 305 n n 
C4N C5N NDP sing 306 n n 
C4N H41N NDP sing 307 n n 
C4N H42N NDP sing 308 n n 
C5N C6N NDP doub 309 n n 
C5N H5N NDP sing 310 n n 
C6N H6N NDP sing 311 n n 
P2B O1X NDP doub 312 n n 
P2B O2X NDP sing 313 n n 
P2B O3X NDP sing 314 n n 
O2X HOP2 NDP sing 315 n n 
O3X HOP3 NDP sing 316 n n 
#
_atom_sites.entry_id                     2PKQ 
_atom_sites.fract_transf_matrix[1][1]    0.005372 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001193 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004636 
_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]    0.012573 
_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
G 3 SO4 O 1 370 370 SO4 SO4 . 
H 4 NDP O 1 363 363 NDP NDP . 
I 3 SO4 P 1 371 371 SO4 SO4 . 
J 3 SO4 P 1 372 372 SO4 SO4 . 
K 4 NDP P 1 364 364 NDP NDP . 
L 3 SO4 Q 1 373 373 SO4 SO4 . 
M 3 SO4 Q 1 382 382 SO4 SO4 . 
N 3 SO4 Q 1 384 384 SO4 SO4 . 
O 4 NDP Q 1 365 365 NDP NDP . 
P 3 SO4 R 1 374 374 SO4 SO4 . 
Q 3 SO4 R 1 375 375 SO4 SO4 . 
R 3 SO4 R 1 381 381 SO4 SO4 . 
S 4 NDP R 1 366 366 NDP NDP . 
T 3 SO4 S 1 376 376 SO4 SO4 . 
U 3 SO4 S 1 377 377 SO4 SO4 . 
V 3 SO4 S 1 380 380 SO4 SO4 . 
W 4 NDP S 1 367 367 NDP NDP . 
X 3 SO4 T 1 378 378 SO4 SO4 . 
Y 3 SO4 T 1 379 379 SO4 SO4 . 
Z 3 SO4 T 1 383 383 SO4 SO4 . 
AA 4 NDP T 1 368 368 NDP NDP . 
#
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 NDP . . . K 4 49.742 0.715 -19.148 1 24.81 ? PA NDP 364 P 1 
HETATM 2 O O1A NDP . . . K 4 48.427 0.727 -19.807 1 22.99 ? O1A NDP 364 P 1 
HETATM 3 O O2A NDP . . . K 4 49.844 1.049 -17.717 1 25.59 ? O2A NDP 364 P 1 
HETATM 4 O O5B NDP . . . K 4 50.789 1.683 -19.929 1 31.82 ? O5B NDP 364 P 1 
HETATM 5 C C5B NDP . . . K 4 50.816 1.94 -21.351 1 41.26 ? C5B NDP 364 P 1 
HETATM 6 C C4B NDP . . . K 4 50.765 3.465 -21.544 1 47.33 ? C4B NDP 364 P 1 
HETATM 7 O O4B NDP . . . K 4 51 3.862 -22.915 1 50.67 ? O4B NDP 364 P 1 
HETATM 8 C C3B NDP . . . K 4 49.44 4.109 -21.192 1 51.96 ? C3B NDP 364 P 1 
HETATM 9 O O3B NDP . . . K 4 49.592 5.329 -20.489 1 50.51 ? O3B NDP 364 P 1 
HETATM 10 C C2B NDP . . . K 4 48.866 4.462 -22.538 1 57.27 ? C2B NDP 364 P 1 
HETATM 11 O O2B NDP . . . K 4 47.893 5.497 -22.487 1 68.73 ? O2B NDP 364 P 1 
HETATM 12 C C1B NDP . . . K 4 50.077 4.894 -23.264 1 54.76 ? C1B NDP 364 P 1 
HETATM 13 N N9A NDP . . . K 4 49.89 4.898 -24.712 1 53.56 ? N9A NDP 364 P 1 
HETATM 14 C C8A NDP . . . K 4 49.138 4.061 -25.455 1 51.77 ? C8A NDP 364 P 1 
HETATM 15 N N7A NDP . . . K 4 49.334 4.282 -26.761 1 50.13 ? N7A NDP 364 P 1 
HETATM 16 C C5A NDP . . . K 4 50.205 5.272 -26.785 1 52.13 ? C5A NDP 364 P 1 
HETATM 17 C C6A NDP . . . K 4 50.699 5.854 -27.942 1 53.49 ? C6A NDP 364 P 1 
HETATM 18 N N6A NDP . . . K 4 50.303 5.447 -29.132 1 54.56 ? N6A NDP 364 P 1 
HETATM 19 N N1A NDP . . . K 4 51.59 6.851 -27.773 1 54.6 ? N1A NDP 364 P 1 
HETATM 20 C C2A NDP . . . K 4 51.964 7.223 -26.539 1 55.22 ? C2A NDP 364 P 1 
HETATM 21 N N3A NDP . . . K 4 51.489 6.663 -25.409 1 54.8 ? N3A NDP 364 P 1 
HETATM 22 C C4A NDP . . . K 4 50.586 5.675 -25.523 1 53.17 ? C4A NDP 364 P 1 
HETATM 23 O O3 NDP . . . K 4 50.407 -0.694 -19.327 1 21.95 ? O3 NDP 364 P 1 
HETATM 24 P PN NDP . . . K 4 51.612 -1.456 -18.644 1 19.37 ? PN NDP 364 P 1 
HETATM 25 O O1N NDP . . . K 4 51.113 -2.47 -17.667 1 20.02 ? O1N NDP 364 P 1 
HETATM 26 O O2N NDP . . . K 4 52.583 -0.439 -18.182 1 20.41 ? O2N NDP 364 P 1 
HETATM 27 O O5D NDP . . . K 4 52.351 -2.26 -19.795 1 21.51 ? O5D NDP 364 P 1 
HETATM 28 C C5D NDP . . . K 4 53.124 -1.551 -20.765 1 23.14 ? C5D NDP 364 P 1 
HETATM 29 C C4D NDP . . . K 4 53.974 -2.567 -21.521 1 22.62 ? C4D NDP 364 P 1 
HETATM 30 O O4D NDP . . . K 4 54.879 -3.234 -20.624 1 22.82 ? O4D NDP 364 P 1 
HETATM 31 C C3D NDP . . . K 4 53.212 -3.7 -22.188 1 22.4 ? C3D NDP 364 P 1 
HETATM 32 O O3D NDP . . . K 4 54.017 -4.238 -23.255 1 24.66 ? O3D NDP 364 P 1 
HETATM 33 C C2D NDP . . . K 4 53.189 -4.787 -21.136 1 21.67 ? C2D NDP 364 P 1 
HETATM 34 O O2D NDP . . . K 4 53.012 -6.107 -21.694 1 21.64 ? O2D NDP 364 P 1 
HETATM 35 C C1D NDP . . . K 4 54.584 -4.632 -20.584 1 22.22 ? C1D NDP 364 P 1 
HETATM 36 N N1N NDP . . . K 4 54.727 -5.148 -19.208 1 22.31 ? N1N NDP 364 P 1 
HETATM 37 C C2N NDP . . . K 4 53.679 -5.02 -18.249 1 21.59 ? C2N NDP 364 P 1 
HETATM 38 C C3N NDP . . . K 4 53.828 -5.538 -16.954 1 20.15 ? C3N NDP 364 P 1 
HETATM 39 C C7N NDP . . . K 4 52.867 -5.205 -15.781 1 19.42 ? C7N NDP 364 P 1 
HETATM 40 O O7N NDP . . . K 4 52.949 -5.852 -14.734 1 17.76 ? O7N NDP 364 P 1 
HETATM 41 N N7N NDP . . . K 4 51.852 -4.366 -16.013 1 20.09 ? N7N NDP 364 P 1 
HETATM 42 C C4N NDP . . . K 4 55.016 -6.22 -16.672 1 21 ? C4N NDP 364 P 1 
HETATM 43 C C5N NDP . . . K 4 56.034 -6.37 -17.623 1 21.54 ? C5N NDP 364 P 1 
HETATM 44 C C6N NDP . . . K 4 55.907 -5.829 -18.896 1 22.14 ? C6N NDP 364 P 1 
HETATM 45 P P2B NDP . . . K 4 46.384 5.085 -22.92 1 77.46 ? P2B NDP 364 P 1 
HETATM 46 O O1X NDP . . . K 4 46.3 4.782 -24.505 1 77.76 ? O1X NDP 364 P 1 
HETATM 47 O O2X NDP . . . K 4 45.929 3.741 -22.15 1 77.52 ? O2X NDP 364 P 1 
HETATM 48 O O3X NDP . . . K 4 45.465 6.186 -22.569 1 76.88 ? O3X NDP 364 P 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           266 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           48 
#