data_2P9E
#
_model_server_result.job_id            UYI8yJaSLDmD9FZYgFKhZQ 
_model_server_result.datetime_utc      '2024-12-21 16:57:37' 
_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          2p9e 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":509}' 
#
_entry.id    2P9E 
#
_exptl.entry_id    2P9E 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              665.441 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' 
_entity.pdbx_number_of_molecules    4 
_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            2P9E 
_cell.length_a            76.237 
_cell.length_b            76.237 
_cell.length_c            353.65 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2P9E 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        78 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43' 
#
_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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA 
_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
? 3 G N N 
? 3 L N N 
? 3 Q N N 
? 3 V N N 
#
_chem_comp.formula           'C21 H29 N7 O14 P2' 
_chem_comp.formula_weight    665.441 
_chem_comp.id                NAI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     NADH 
#
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 NAI doub 257 n n 
PA O2A NAI sing 258 n n 
PA O5B NAI sing 259 n n 
PA O3 NAI sing 260 n n 
O2A HOA2 NAI sing 261 n n 
O5B C5B NAI sing 262 n n 
C5B C4B NAI sing 263 n n 
C5B H51A NAI sing 264 n n 
C5B H52A NAI sing 265 n n 
C4B O4B NAI sing 266 n n 
C4B C3B NAI sing 267 n n 
C4B H4B NAI sing 268 n n 
O4B C1B NAI sing 269 n n 
C3B O3B NAI sing 270 n n 
C3B C2B NAI sing 271 n n 
C3B H3B NAI sing 272 n n 
O3B HO3A NAI sing 273 n n 
C2B O2B NAI sing 274 n n 
C2B C1B NAI sing 275 n n 
C2B H2B NAI sing 276 n n 
O2B HO2A NAI sing 277 n n 
C1B N9A NAI sing 278 n n 
C1B H1B NAI sing 279 n n 
N9A C8A NAI sing 280 n y 
N9A C4A NAI sing 281 n y 
C8A N7A NAI doub 282 n y 
C8A H8A NAI sing 283 n n 
N7A C5A NAI sing 284 n y 
C5A C6A NAI sing 285 n y 
C5A C4A NAI doub 286 n y 
C6A N6A NAI sing 287 n n 
C6A N1A NAI doub 288 n y 
N6A H61A NAI sing 289 n n 
N6A H62A NAI sing 290 n n 
N1A C2A NAI sing 291 n y 
C2A N3A NAI doub 292 n y 
C2A H2A NAI sing 293 n n 
N3A C4A NAI sing 294 n y 
O3 PN NAI sing 295 n n 
PN O1N NAI sing 296 n n 
PN O2N NAI doub 297 n n 
PN O5D NAI sing 298 n n 
O1N HO1N NAI sing 299 n n 
O5D C5D NAI sing 300 n n 
C5D C4D NAI sing 301 n n 
C5D H51N NAI sing 302 n n 
C5D H52N NAI sing 303 n n 
C4D O4D NAI sing 304 n n 
C4D C3D NAI sing 305 n n 
C4D H4D NAI sing 306 n n 
O4D C1D NAI sing 307 n n 
C3D O3D NAI sing 308 n n 
C3D C2D NAI sing 309 n n 
C3D H3D NAI sing 310 n n 
O3D HO3N NAI sing 311 n n 
C2D O2D NAI sing 312 n n 
C2D C1D NAI sing 313 n n 
C2D H2D NAI sing 314 n n 
O2D HO2N NAI sing 315 n n 
C1D N1N NAI sing 316 n n 
C1D H1D NAI sing 317 n n 
N1N C2N NAI sing 318 n n 
N1N C6N NAI sing 319 n n 
C2N C3N NAI doub 320 n n 
C2N H2N NAI sing 321 n n 
C3N C7N NAI sing 322 n n 
C3N C4N NAI sing 323 n n 
C7N O7N NAI doub 324 n n 
C7N N7N NAI sing 325 n n 
N7N H71N NAI sing 326 n n 
N7N H72N NAI sing 327 n n 
C4N C5N NAI sing 328 n n 
C4N H4N NAI sing 329 n n 
C4N H42N NAI sing 330 n n 
C5N C6N NAI doub 331 n n 
C5N H5N NAI sing 332 n n 
C6N H6N NAI sing 333 n n 
#
_atom_sites.entry_id                     2P9E 
_atom_sites.fract_transf_matrix[1][1]    0.013117 
_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]    0.013117 
_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]    0.002828 
_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
E 2 PO4 A 1 500 500 PO4 PO4 . 
F 2 PO4 A 1 504 504 PO4 PO4 . 
G 3 NAI A 1 508 508 NAI NAI . 
H 4 CIT A 1 514 514 CIT CIT . 
I 4 CIT A 1 518 518 CIT CIT . 
J 2 PO4 B 1 499 499 PO4 PO4 . 
K 2 PO4 B 1 503 503 PO4 PO4 . 
L 3 NAI B 1 509 509 NAI NAI . 
M 4 CIT B 1 516 516 CIT CIT . 
N 2 PO4 C 1 501 501 PO4 PO4 . 
O 2 PO4 C 1 502 502 PO4 PO4 . 
P 5 SO4 C 1 506 506 SO4 SO4 . 
Q 3 NAI C 1 510 510 NAI NAI . 
R 4 CIT C 1 515 515 CIT CIT . 
S 4 CIT C 1 517 517 CIT CIT . 
T 2 PO4 D 1 505 505 PO4 PO4 . 
U 2 PO4 D 1 507 507 PO4 PO4 . 
V 3 NAI D 1 511 511 NAI NAI . 
W 4 CIT D 1 513 513 CIT CIT . 
X 6 HOH A 1 519 519 HOH HOH . 
X 6 HOH A 2 520 520 HOH HOH . 
X 6 HOH A 3 521 521 HOH HOH . 
X 6 HOH A 4 524 524 HOH HOH . 
X 6 HOH A 5 525 525 HOH HOH . 
X 6 HOH A 6 543 543 HOH HOH . 
X 6 HOH A 7 544 544 HOH HOH . 
X 6 HOH A 8 545 545 HOH HOH . 
X 6 HOH A 9 546 546 HOH HOH . 
X 6 HOH A 10 556 556 HOH HOH . 
X 6 HOH A 11 557 557 HOH HOH . 
X 6 HOH A 12 566 566 HOH HOH . 
X 6 HOH A 13 567 567 HOH HOH . 
X 6 HOH A 14 570 570 HOH HOH . 
X 6 HOH A 15 571 571 HOH HOH . 
X 6 HOH A 16 574 574 HOH HOH . 
X 6 HOH A 17 575 575 HOH HOH . 
X 6 HOH A 18 576 576 HOH HOH . 
X 6 HOH A 19 579 579 HOH HOH . 
X 6 HOH A 20 580 580 HOH HOH . 
X 6 HOH A 21 581 581 HOH HOH . 
X 6 HOH A 22 588 588 HOH HOH . 
X 6 HOH A 23 596 596 HOH HOH . 
X 6 HOH A 24 597 597 HOH HOH . 
Y 6 HOH B 1 522 522 HOH HOH . 
Y 6 HOH B 2 523 523 HOH HOH . 
Y 6 HOH B 3 526 526 HOH HOH . 
Y 6 HOH B 4 527 527 HOH HOH . 
Y 6 HOH B 5 528 528 HOH HOH . 
Y 6 HOH B 6 559 559 HOH HOH . 
Y 6 HOH B 7 560 560 HOH HOH . 
Y 6 HOH B 8 561 561 HOH HOH . 
Y 6 HOH B 9 562 562 HOH HOH . 
Y 6 HOH B 10 563 563 HOH HOH . 
Y 6 HOH B 11 568 568 HOH HOH . 
Y 6 HOH B 12 569 569 HOH HOH . 
Y 6 HOH B 13 582 582 HOH HOH . 
Y 6 HOH B 14 583 583 HOH HOH . 
Y 6 HOH B 15 594 594 HOH HOH . 
Y 6 HOH B 16 598 598 HOH HOH . 
Z 6 HOH C 1 529 529 HOH HOH . 
Z 6 HOH C 2 530 530 HOH HOH . 
Z 6 HOH C 3 531 531 HOH HOH . 
Z 6 HOH C 4 532 532 HOH HOH . 
Z 6 HOH C 5 537 537 HOH HOH . 
Z 6 HOH C 6 539 539 HOH HOH . 
Z 6 HOH C 7 552 552 HOH HOH . 
Z 6 HOH C 8 553 553 HOH HOH . 
Z 6 HOH C 9 554 554 HOH HOH . 
Z 6 HOH C 10 555 555 HOH HOH . 
Z 6 HOH C 11 564 564 HOH HOH . 
Z 6 HOH C 12 584 584 HOH HOH . 
Z 6 HOH C 13 585 585 HOH HOH . 
Z 6 HOH C 14 589 589 HOH HOH . 
Z 6 HOH C 15 593 593 HOH HOH . 
AA 6 HOH D 1 533 533 HOH HOH . 
AA 6 HOH D 2 534 534 HOH HOH . 
AA 6 HOH D 3 535 535 HOH HOH . 
AA 6 HOH D 4 536 536 HOH HOH . 
AA 6 HOH D 5 538 538 HOH HOH . 
AA 6 HOH D 6 540 540 HOH HOH . 
AA 6 HOH D 7 541 541 HOH HOH . 
AA 6 HOH D 8 542 542 HOH HOH . 
AA 6 HOH D 9 547 547 HOH HOH . 
AA 6 HOH D 10 548 548 HOH HOH . 
AA 6 HOH D 11 549 549 HOH HOH . 
AA 6 HOH D 12 550 550 HOH HOH . 
AA 6 HOH D 13 551 551 HOH HOH . 
AA 6 HOH D 14 558 558 HOH HOH . 
AA 6 HOH D 15 565 565 HOH HOH . 
AA 6 HOH D 16 572 572 HOH HOH . 
AA 6 HOH D 17 573 573 HOH HOH . 
AA 6 HOH D 18 577 577 HOH HOH . 
AA 6 HOH D 19 578 578 HOH HOH . 
AA 6 HOH D 20 586 586 HOH HOH . 
AA 6 HOH D 21 587 587 HOH HOH . 
AA 6 HOH D 22 590 590 HOH HOH . 
AA 6 HOH D 23 591 591 HOH HOH . 
AA 6 HOH D 24 592 592 HOH HOH . 
AA 6 HOH D 25 595 595 HOH HOH . 
AA 6 HOH D 26 599 599 HOH HOH . 
AA 6 HOH D 27 600 600 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 NAI . . . L 3 47.456 25.759 -8.047 1 46.56 ? PA NAI 509 B 1 
HETATM 2 O O1A NAI . . . L 3 48.325 26.171 -6.914 1 49.26 ? O1A NAI 509 B 1 
HETATM 3 O O2A NAI . . . L 3 46.088 25.55 -7.531 1 36.65 ? O2A NAI 509 B 1 
HETATM 4 O O5B NAI . . . L 3 48.013 24.491 -8.846 1 37.8 ? O5B NAI 509 B 1 
HETATM 5 C C5B NAI . . . L 3 49.27 24.466 -9.482 1 36.71 ? C5B NAI 509 B 1 
HETATM 6 C C4B NAI . . . L 3 49.623 22.962 -9.556 1 47.37 ? C4B NAI 509 B 1 
HETATM 7 O O4B NAI . . . L 3 50.859 22.643 -10.156 1 41.63 ? O4B NAI 509 B 1 
HETATM 8 C C3B NAI . . . L 3 49.684 22.328 -8.181 1 46.81 ? C3B NAI 509 B 1 
HETATM 9 O O3B NAI . . . L 3 48.897 21.169 -8.236 1 45.4 ? O3B NAI 509 B 1 
HETATM 10 C C2B NAI . . . L 3 51.103 21.896 -7.964 1 39.84 ? C2B NAI 509 B 1 
HETATM 11 O O2B NAI . . . L 3 51.041 20.612 -7.414 1 59.5 ? O2B NAI 509 B 1 
HETATM 12 C C1B NAI . . . L 3 51.559 21.707 -9.365 1 46.83 ? C1B NAI 509 B 1 
HETATM 13 N N9A NAI . . . L 3 53.004 21.895 -9.494 1 49.83 ? N9A NAI 509 B 1 
HETATM 14 C C8A NAI . . . L 3 53.785 22.769 -8.803 1 51.06 ? C8A NAI 509 B 1 
HETATM 15 N N7A NAI . . . L 3 55.064 22.647 -9.245 1 47.54 ? N7A NAI 509 B 1 
HETATM 16 C C5A NAI . . . L 3 55.1 21.707 -10.207 1 48.34 ? C5A NAI 509 B 1 
HETATM 17 C C6A NAI . . . L 3 56.151 21.251 -10.987 1 50.31 ? C6A NAI 509 B 1 
HETATM 18 N N6A NAI . . . L 3 56.95 22.233 -11.426 1 45.36 ? N6A NAI 509 B 1 
HETATM 19 N N1A NAI . . . L 3 55.865 20.247 -11.889 1 47.32 ? N1A NAI 509 B 1 
HETATM 20 C C2A NAI . . . L 3 54.58 19.769 -12.055 1 48.47 ? C2A NAI 509 B 1 
HETATM 21 N N3A NAI . . . L 3 53.546 20.272 -11.298 1 45.73 ? N3A NAI 509 B 1 
HETATM 22 C C4A NAI . . . L 3 53.807 21.232 -10.388 1 49.91 ? C4A NAI 509 B 1 
HETATM 23 O O3 NAI . . . L 3 47.595 26.856 -9.242 1 48.48 ? O3 NAI 509 B 1 
HETATM 24 P PN NAI . . . L 3 46.402 27.28 -10.263 1 46.55 ? PN NAI 509 B 1 
HETATM 25 O O1N NAI . . . L 3 45.486 28.254 -9.604 1 54.49 ? O1N NAI 509 B 1 
HETATM 26 O O2N NAI . . . L 3 45.744 26.067 -10.812 1 56.55 ? O2N NAI 509 B 1 
HETATM 27 O O5D NAI . . . L 3 47.218 28.039 -11.419 1 44.06 ? O5D NAI 509 B 1 
HETATM 28 C C5D NAI . . . L 3 48.486 27.608 -11.812 1 42.28 ? C5D NAI 509 B 1 
HETATM 29 C C4D NAI . . . L 3 49.18 28.674 -12.636 1 37.08 ? C4D NAI 509 B 1 
HETATM 30 O O4D NAI . . . L 3 48.276 29.291 -13.533 1 39.82 ? O4D NAI 509 B 1 
HETATM 31 C C3D NAI . . . L 3 49.779 29.799 -11.776 1 49.22 ? C3D NAI 509 B 1 
HETATM 32 O O3D NAI . . . L 3 51.046 30.197 -12.299 1 41.48 ? O3D NAI 509 B 1 
HETATM 33 C C2D NAI . . . L 3 48.825 30.957 -11.997 1 45.48 ? C2D NAI 509 B 1 
HETATM 34 O O2D NAI . . . L 3 49.407 32.237 -11.775 1 50.25 ? O2D NAI 509 B 1 
HETATM 35 C C1D NAI . . . L 3 48.538 30.694 -13.467 1 36.88 ? C1D NAI 509 B 1 
HETATM 36 N N1N NAI . . . L 3 47.474 31.6 -13.905 1 32.49 ? N1N NAI 509 B 1 
HETATM 37 C C2N NAI . . . L 3 47.646 32.425 -15.008 1 29.5 ? C2N NAI 509 B 1 
HETATM 38 C C3N NAI . . . L 3 46.609 33.306 -15.379 1 30.9 ? C3N NAI 509 B 1 
HETATM 39 C C7N NAI . . . L 3 46.57 34.027 -16.706 1 26.23 ? C7N NAI 509 B 1 
HETATM 40 O O7N NAI . . . L 3 45.777 35.17 -16.882 1 49.51 ? O7N NAI 509 B 1 
HETATM 41 N N7N NAI . . . L 3 47.271 33.578 -17.735 1 27.96 ? N7N NAI 509 B 1 
HETATM 42 C C4N NAI . . . L 3 45.447 33.314 -14.62 1 32.41 ? C4N NAI 509 B 1 
HETATM 43 C C5N NAI . . . L 3 45.29 32.471 -13.517 1 35.53 ? C5N NAI 509 B 1 
HETATM 44 C C6N NAI . . . L 3 46.326 31.611 -13.168 1 29.95 ? C6N NAI 509 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           44 
#