data_5EJI
#
_model_server_result.job_id            k-hHMHCHrB7CPym2t4oVAw 
_model_server_result.datetime_utc      '2024-11-15 01:18:44' 
_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          5eji 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    5EJI 
#
_exptl.entry_id    5EJI 
_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    1 
_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            5EJI 
_cell.length_a            63.466 
_cell.length_b            74.389 
_cell.length_c            119.012 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5EJI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 2 2 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 
#
_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    1,2,3,4 
#
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' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.466 0 0 
3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.466 0 0 
4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 B O1A NAP . A NAP 301 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? 
metalc ? metalc2 B O3X NAP . A NAP 301 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc3 C MN MN . A MN 302 1_555 D O4 POP . A POP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? 
metalc ? metalc4 C MN MN . A MN 302 1_555 D O POP . A POP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
#
_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                     5EJI 
_atom_sites.fract_transf_matrix[1][1]    0.015756 
_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]    0.013443 
_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]    0.008402 
_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
B 2 NAP A 1 301 1 NAP NAP . 
C 3 MN A 1 302 1 MN MN . 
D 4 POP A 1 303 1 POP POP . 
E 5 CIT A 1 304 1 CIT CIT . 
F 6 HOH A 1 401 21 HOH HOH . 
F 6 HOH A 2 402 29 HOH HOH . 
F 6 HOH A 3 403 8 HOH HOH . 
F 6 HOH A 4 404 7 HOH HOH . 
F 6 HOH A 5 405 20 HOH HOH . 
F 6 HOH A 6 406 5 HOH HOH . 
F 6 HOH A 7 407 16 HOH HOH . 
F 6 HOH A 8 408 12 HOH HOH . 
F 6 HOH A 9 409 13 HOH HOH . 
F 6 HOH A 10 410 26 HOH HOH . 
F 6 HOH A 11 411 28 HOH HOH . 
F 6 HOH A 12 412 27 HOH HOH . 
F 6 HOH A 13 413 30 HOH HOH . 
F 6 HOH A 14 414 6 HOH HOH . 
F 6 HOH A 15 415 23 HOH HOH . 
F 6 HOH A 16 416 3 HOH HOH . 
F 6 HOH A 17 417 10 HOH HOH . 
F 6 HOH A 18 418 15 HOH HOH . 
F 6 HOH A 19 419 9 HOH HOH . 
F 6 HOH A 20 420 17 HOH HOH . 
F 6 HOH A 21 421 14 HOH HOH . 
F 6 HOH A 22 422 4 HOH HOH . 
F 6 HOH A 23 423 11 HOH HOH . 
F 6 HOH A 24 424 24 HOH HOH . 
F 6 HOH A 25 425 2 HOH HOH . 
F 6 HOH A 26 426 33 HOH HOH . 
F 6 HOH A 27 427 31 HOH HOH . 
F 6 HOH A 28 428 1 HOH HOH . 
F 6 HOH A 29 429 19 HOH HOH . 
F 6 HOH A 30 430 32 HOH HOH . 
F 6 HOH A 31 431 22 HOH HOH . 
F 6 HOH A 32 432 34 HOH HOH . 
F 6 HOH A 33 433 18 HOH HOH . 
F 6 HOH A 34 434 25 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 . . . B 2 14.851 6.663 13.411 0.7 54.9 ? PA NAP 301 A 1 
HETATM 2 O O1A NAP . . . B 2 15.06 6.217 14.818 0.3 58.69 ? O1A NAP 301 A 1 
HETATM 3 O O2A NAP . . . B 2 14.56 5.493 12.575 0.8 58.95 ? O2A NAP 301 A 1 
HETATM 4 O O5B NAP . . . B 2 16.176 7.38 12.931 1 55.41 ? O5B NAP 301 A 1 
HETATM 5 C C5B NAP . . . B 2 17.343 6.471 12.779 1 55.87 ? C5B NAP 301 A 1 
HETATM 6 C C4B NAP . . . B 2 18.557 6.983 13.56 1 57.72 ? C4B NAP 301 A 1 
HETATM 7 O O4B NAP . . . B 2 19.151 8.255 12.795 1 54.45 ? O4B NAP 301 A 1 
HETATM 8 C C3B NAP . . . B 2 18.312 7.367 14.809 1 58.84 ? C3B NAP 301 A 1 
HETATM 9 O O3B NAP . . . B 2 19.444 6.882 15.669 1 57.52 ? O3B NAP 301 A 1 
HETATM 10 C C2B NAP . . . B 2 18.379 8.879 14.811 1 60.47 ? C2B NAP 301 A 1 
HETATM 11 O O2B NAP . . . B 2 18.857 9.333 16.009 1 61.08 ? O2B NAP 301 A 1 
HETATM 12 C C1B NAP . . . B 2 19.472 9.087 13.711 1 55.75 ? C1B NAP 301 A 1 
HETATM 13 N N9A NAP . . . B 2 19.567 10.436 13.118 1 48.55 ? N9A NAP 301 A 1 
HETATM 14 C C8A NAP . . . B 2 18.586 11.291 12.738 1 47.51 ? C8A NAP 301 A 1 
HETATM 15 N N7A NAP . . . B 2 19.149 12.414 12.254 1 51.12 ? N7A NAP 301 A 1 
HETATM 16 C C5A NAP . . . B 2 20.528 12.265 12.32 1 47.33 ? C5A NAP 301 A 1 
HETATM 17 C C6A NAP . . . B 2 21.664 13.045 11.967 1 42.76 ? C6A NAP 301 A 1 
HETATM 18 N N6A NAP . . . B 2 21.522 14.362 11.382 1 50.86 ? N6A NAP 301 A 1 
HETATM 19 N N1A NAP . . . B 2 22.867 12.536 12.195 1 46.85 ? N1A NAP 301 A 1 
HETATM 20 C C2A NAP . . . B 2 23.051 11.315 12.722 1 45.26 ? C2A NAP 301 A 1 
HETATM 21 N N3A NAP . . . B 2 22.027 10.539 13.068 1 44.23 ? N3A NAP 301 A 1 
HETATM 22 C C4A NAP . . . B 2 20.787 10.994 12.875 1 43.03 ? C4A NAP 301 A 1 
HETATM 23 O O3 NAP . . . B 2 13.641 7.685 13.384 0.68 78.07 ? O3 NAP 301 A 1 
HETATM 24 P PN NAP . . . B 2 13.818 9.185 12.891 0.98 61.25 ? PN NAP 301 A 1 
HETATM 25 O O1N NAP . . . B 2 15.018 9.842 13.56 1 63.38 ? O1N NAP 301 A 1 
HETATM 26 O O2N NAP . . . B 2 12.599 9.93 13.178 0.31 60.5 ? O2N NAP 301 A 1 
HETATM 27 O O5D NAP . . . B 2 14.04 9.137 11.312 1 94.86 ? O5D NAP 301 A 1 
HETATM 28 C C5D NAP . . . B 2 14.496 10.273 10.554 1 74.28 ? C5D NAP 301 A 1 
HETATM 29 C C4D NAP . . . B 2 15.771 9.994 10.052 1 61.25 ? C4D NAP 301 A 1 
HETATM 30 O O4D NAP . . . B 2 16.143 8.492 10.046 1 56.49 ? O4D NAP 301 A 1 
HETATM 31 C C3D NAP . . . B 2 15.825 10.283 8.524 1 40.78 ? C3D NAP 301 A 1 
HETATM 32 O O3D NAP . . . B 2 15.915 11.746 8.331 1 39.97 ? O3D NAP 301 A 1 
HETATM 33 C C2D NAP . . . B 2 16.857 9.634 8.115 1 42.21 ? C2D NAP 301 A 1 
HETATM 34 O O2D NAP . . . B 2 18.104 10.407 8.023 1 43.06 ? O2D NAP 301 A 1 
HETATM 35 C C1D NAP . . . B 2 17.082 8.375 9.168 1 52.97 ? C1D NAP 301 A 1 
HETATM 36 N N1N NAP . . . B 2 16.934 7.179 8.415 1 48.4 ? N1N NAP 301 A 1 
HETATM 37 C C2N NAP . . . B 2 17.987 6.38 8.27 1 45.36 ? C2N NAP 301 A 1 
HETATM 38 C C3N NAP . . . B 2 17.843 5.201 7.53 1 46.52 ? C3N NAP 301 A 1 
HETATM 39 C C7N NAP . . . B 2 19.031 4.275 7.364 1 45 ? C7N NAP 301 A 1 
HETATM 40 O O7N NAP . . . B 2 20.064 4.581 7.891 1 47.77 ? O7N NAP 301 A 1 
HETATM 41 N N7N NAP . . . B 2 18.869 3.036 6.556 1 34.62 ? N7N NAP 301 A 1 
HETATM 42 C C4N NAP . . . B 2 16.597 4.853 6.937 1 50.94 ? C4N NAP 301 A 1 
HETATM 43 C C5N NAP . . . B 2 15.516 5.746 7.127 1 47.28 ? C5N NAP 301 A 1 
HETATM 44 C C6N NAP . . . B 2 15.73 6.906 7.875 1 43.25 ? C6N NAP 301 A 1 
HETATM 45 P P2B NAP . . . B 2 17.997 9.224 17.406 1 87.06 ? P2B NAP 301 A 1 
HETATM 46 O O1X NAP . . . B 2 18.218 10.506 18.223 1 75.36 ? O1X NAP 301 A 1 
HETATM 47 O O2X NAP . . . B 2 18.486 8.028 18.193 1 84.37 ? O2X NAP 301 A 1 
HETATM 48 O O3X NAP . . . B 2 16.495 9.065 17.149 1 88.66 ? O3X NAP 301 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           320 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           48 
#