data_2A87
#
_model_server_result.job_id            0OTVt2AjNY07DC4V1LY3AQ 
_model_server_result.datetime_utc      '2025-01-18 09:29:18' 
_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          2a87 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":381}' 
#
_entry.id    2A87 
#
_exptl.entry_id    2A87 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          4 
_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         90 
_cell.entry_id            2A87 
_cell.length_a            107.4 
_cell.length_b            107.4 
_cell.length_c            118.2 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2A87 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,G,H,I,J 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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
? 4 E N N 
? 4 H 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 145 A CYS 145 1_555 A SG CYS 148 A CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf2 B SG CYS 145 B CYS 145 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc1 A ND1 HIS 250 A HIS 250 1_555 C MG MG . A MG 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? 
metalc ? metalc2 C MG MG . A MG 336 1_555 E O4D NAP . A NAP 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.033 ? 
metalc ? metalc3 B ND1 HIS 250 B HIS 250 1_555 F MG MG . B MG 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? 
metalc ? metalc4 F MG MG . B MG 336 1_555 H N1N NAP . B NAP 481 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.929 ? 
metalc ? metalc5 F MG MG . B MG 336 1_555 H O4D NAP . B NAP 481 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.643 ? 
#
_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 328 n n 
PA O2A NAP sing 329 n n 
PA O5B NAP sing 330 n n 
PA O3 NAP sing 331 n n 
O2A HOA2 NAP sing 332 n n 
O5B C5B NAP sing 333 n n 
C5B C4B NAP sing 334 n n 
C5B H51A NAP sing 335 n n 
C5B H52A NAP sing 336 n n 
C4B O4B NAP sing 337 n n 
C4B C3B NAP sing 338 n n 
C4B H4B NAP sing 339 n n 
O4B C1B NAP sing 340 n n 
C3B O3B NAP sing 341 n n 
C3B C2B NAP sing 342 n n 
C3B H3B NAP sing 343 n n 
O3B HO3A NAP sing 344 n n 
C2B O2B NAP sing 345 n n 
C2B C1B NAP sing 346 n n 
C2B H2B NAP sing 347 n n 
O2B P2B NAP sing 348 n n 
C1B N9A NAP sing 349 n n 
C1B H1B NAP sing 350 n n 
N9A C8A NAP sing 351 n y 
N9A C4A NAP sing 352 n y 
C8A N7A NAP doub 353 n y 
C8A H8A NAP sing 354 n n 
N7A C5A NAP sing 355 n y 
C5A C6A NAP sing 356 n y 
C5A C4A NAP doub 357 n y 
C6A N6A NAP sing 358 n n 
C6A N1A NAP doub 359 n y 
N6A H61A NAP sing 360 n n 
N6A H62A NAP sing 361 n n 
N1A C2A NAP sing 362 n y 
C2A N3A NAP doub 363 n y 
C2A H2A NAP sing 364 n n 
N3A C4A NAP sing 365 n y 
O3 PN NAP sing 366 n n 
PN O1N NAP doub 367 n n 
PN O2N NAP sing 368 n n 
PN O5D NAP sing 369 n n 
O5D C5D NAP sing 370 n n 
C5D C4D NAP sing 371 n n 
C5D H51N NAP sing 372 n n 
C5D H52N NAP sing 373 n n 
C4D O4D NAP sing 374 n n 
C4D C3D NAP sing 375 n n 
C4D H4D NAP sing 376 n n 
O4D C1D NAP sing 377 n n 
C3D O3D NAP sing 378 n n 
C3D C2D NAP sing 379 n n 
C3D H3D NAP sing 380 n n 
O3D HO3N NAP sing 381 n n 
C2D O2D NAP sing 382 n n 
C2D C1D NAP sing 383 n n 
C2D H2D NAP sing 384 n n 
O2D HO2N NAP sing 385 n n 
C1D N1N NAP sing 386 n n 
C1D H1D NAP sing 387 n n 
N1N C2N NAP sing 388 n y 
N1N C6N NAP doub 389 n y 
C2N C3N NAP doub 390 n y 
C2N H2N NAP sing 391 n n 
C3N C7N NAP sing 392 n n 
C3N C4N NAP sing 393 n y 
C7N O7N NAP doub 394 n n 
C7N N7N NAP sing 395 n n 
N7N H71N NAP sing 396 n n 
N7N H72N NAP sing 397 n n 
C4N C5N NAP doub 398 n y 
C4N H4N NAP sing 399 n n 
C5N C6N NAP sing 400 n y 
C5N H5N NAP sing 401 n n 
C6N H6N NAP sing 402 n n 
P2B O1X NAP doub 403 n n 
P2B O2X NAP sing 404 n n 
P2B O3X NAP sing 405 n n 
O2X HOP2 NAP sing 406 n n 
O3X HOP3 NAP sing 407 n n 
#
_atom_sites.entry_id                     2A87 
_atom_sites.fract_transf_matrix[1][1]    0.009311 
_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]    0.009311 
_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]    0.008472 
_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 MG A 1 336 73 MG MG . 
D 3 FAD A 1 348 448 FAD FAD . 
E 4 NAP A 1 381 481 NAP NAP . 
F 2 MG B 1 336 74 MG MG . 
G 3 FAD B 1 448 448 FAD FAD . 
H 4 NAP B 1 481 481 NAP NAP . 
I 5 HOH A 1 382 1 HOH HOH . 
I 5 HOH A 2 383 8 HOH HOH . 
I 5 HOH A 3 384 9 HOH HOH . 
I 5 HOH A 4 385 10 HOH HOH . 
I 5 HOH A 5 386 11 HOH HOH . 
I 5 HOH A 6 387 12 HOH HOH . 
I 5 HOH A 7 388 13 HOH HOH . 
I 5 HOH A 8 389 16 HOH HOH . 
I 5 HOH A 9 390 18 HOH HOH . 
I 5 HOH A 10 391 19 HOH HOH . 
J 5 HOH B 1 482 2 HOH HOH . 
J 5 HOH B 2 483 5 HOH HOH . 
J 5 HOH B 3 484 7 HOH HOH . 
J 5 HOH B 4 485 14 HOH HOH . 
J 5 HOH B 5 486 15 HOH HOH . 
J 5 HOH B 6 487 17 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 . . . E 4 -7.789 10.193 37.733 0.5 95.32 ? PA NAP 381 A 1 
HETATM 2 O O1A NAP . . . E 4 -8.443 9.52 36.589 0.5 94.03 ? O1A NAP 381 A 1 
HETATM 3 O O2A NAP . . . E 4 -8.03 11.653 37.682 0.5 98.23 ? O2A NAP 381 A 1 
HETATM 4 O O5B NAP . . . E 4 -8.332 9.569 39.123 0.5 72.35 ? O5B NAP 381 A 1 
HETATM 5 C C5B NAP . . . E 4 -8.955 10.4 40.081 0.5 77.57 ? C5B NAP 381 A 1 
HETATM 6 C C4B NAP . . . E 4 -9.343 9.597 41.322 0.5 79.48 ? C4B NAP 381 A 1 
HETATM 7 O O4B NAP . . . E 4 -8.756 10.146 42.5 0.5 68.02 ? O4B NAP 381 A 1 
HETATM 8 C C3B NAP . . . E 4 -10.844 9.596 41.605 0.5 81.02 ? C3B NAP 381 A 1 
HETATM 9 O O3B NAP . . . E 4 -11.624 8.681 40.874 0.5 41.51 ? O3B NAP 381 A 1 
HETATM 10 C C2B NAP . . . E 4 -10.854 9.267 43.077 0.5 79.6 ? C2B NAP 381 A 1 
HETATM 11 O O2B NAP . . . E 4 -10.749 7.885 43.273 0.5 77.7 ? O2B NAP 381 A 1 
HETATM 12 C C1B NAP . . . E 4 -9.634 9.994 43.606 0.5 67.88 ? C1B NAP 381 A 1 
HETATM 13 N N9A NAP . . . E 4 -10.178 11.257 44.134 0.5 68.95 ? N9A NAP 381 A 1 
HETATM 14 C C8A NAP . . . E 4 -10.664 12.309 43.393 0.5 68.27 ? C8A NAP 381 A 1 
HETATM 15 N N7A NAP . . . E 4 -11.109 13.258 44.248 0.5 68.22 ? N7A NAP 381 A 1 
HETATM 16 C C5A NAP . . . E 4 -10.92 12.831 45.513 0.5 56.4 ? C5A NAP 381 A 1 
HETATM 17 C C6A NAP . . . E 4 -11.196 13.418 46.735 0.5 55.45 ? C6A NAP 381 A 1 
HETATM 18 N N6A NAP . . . E 4 -11.714 14.643 46.773 0.5 50.91 ? N6A NAP 381 A 1 
HETATM 19 N N1A NAP . . . E 4 -10.899 12.735 47.898 0.5 65.23 ? N1A NAP 381 A 1 
HETATM 20 C C2A NAP . . . E 4 -10.327 11.477 47.832 0.5 72.06 ? C2A NAP 381 A 1 
HETATM 21 N N3A NAP . . . E 4 -10.056 10.897 46.604 0.5 73.05 ? N3A NAP 381 A 1 
HETATM 22 C C4A NAP . . . E 4 -10.348 11.566 45.461 0.5 64.91 ? C4A NAP 381 A 1 
HETATM 23 O O3 NAP . . . E 4 -6.208 9.856 37.706 0.5 90.28 ? O3 NAP 381 A 1 
HETATM 24 P PN NAP . . . E 4 -5.14 10.743 36.881 0.5 83.42 ? PN NAP 381 A 1 
HETATM 25 O O1N NAP . . . E 4 -5.198 12.119 37.422 0.5 70.41 ? O1N NAP 381 A 1 
HETATM 26 O O2N NAP . . . E 4 -3.854 10.009 36.835 0.5 65.87 ? O2N NAP 381 A 1 
HETATM 27 O O5D NAP . . . E 4 -5.734 10.765 35.385 0.5 84.98 ? O5D NAP 381 A 1 
HETATM 28 C C5D NAP . . . E 4 -4.951 11.235 34.312 0.5 75.29 ? C5D NAP 381 A 1 
HETATM 29 C C4D NAP . . . E 4 -4.741 12.739 34.479 0.5 80.71 ? C4D NAP 381 A 1 
HETATM 30 O O4D NAP . . . E 4 -3.374 12.993 34.748 0.5 85.09 ? O4D NAP 381 A 1 
HETATM 31 C C3D NAP . . . E 4 -5.143 13.545 33.257 0.5 81.15 ? C3D NAP 381 A 1 
HETATM 32 O O3D NAP . . . E 4 -6.187 14.444 33.586 0.5 73.23 ? O3D NAP 381 A 1 
HETATM 33 C C2D NAP . . . E 4 -3.897 14.294 32.84 0.5 71.44 ? C2D NAP 381 A 1 
HETATM 34 O O2D NAP . . . E 4 -4.178 15.664 32.945 0.5 70.13 ? O2D NAP 381 A 1 
HETATM 35 C C1D NAP . . . E 4 -2.809 13.903 33.825 0.5 71.06 ? C1D NAP 381 A 1 
HETATM 36 N N1N NAP . . . E 4 -1.591 13.301 33.252 0.5 68.08 ? N1N NAP 381 A 1 
HETATM 37 C C2N NAP . . . E 4 -1.669 12.22 32.416 0.5 69.45 ? C2N NAP 381 A 1 
HETATM 38 C C3N NAP . . . E 4 -0.504 11.644 31.904 0.5 73.72 ? C3N NAP 381 A 1 
HETATM 39 C C7N NAP . . . E 4 -0.537 10.162 31.663 0.5 68.77 ? C7N NAP 381 A 1 
HETATM 40 O O7N NAP . . . E 4 -0.811 9.292 32.736 0.5 35.32 ? O7N NAP 381 A 1 
HETATM 41 N N7N NAP . . . E 4 -0.307 9.701 30.436 0.5 75.74 ? N7N NAP 381 A 1 
HETATM 42 C C4N NAP . . . E 4 0.733 12.19 32.249 0.5 72.28 ? C4N NAP 381 A 1 
HETATM 43 C C5N NAP . . . E 4 0.804 13.279 33.115 0.5 70.56 ? C5N NAP 381 A 1 
HETATM 44 C C6N NAP . . . E 4 -0.375 13.823 33.614 0.5 70.84 ? C6N NAP 381 A 1 
HETATM 45 P P2B NAP . . . E 4 -12.092 7.012 43.312 0.5 74.65 ? P2B NAP 381 A 1 
HETATM 46 O O1X NAP . . . E 4 -11.696 5.605 42.962 0.5 77.42 ? O1X NAP 381 A 1 
HETATM 47 O O2X NAP . . . E 4 -13.108 7.543 42.326 0.5 54.48 ? O2X NAP 381 A 1 
HETATM 48 O O3X NAP . . . E 4 -12.659 7.06 44.708 0.5 95.49 ? O3X NAP 381 A 1 
#
_model_server_stats.io_time_ms              58 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           48 
#