9OTW: Nucleoprotein

Influenza A Virus Nucleoprotein(8-498)NP complex with 5-(4-{[(2R)-6,6-dimethyl-1,4-dioxan-2-yl]methoxy}phenyl)-2-oxo-6-(trifluoromethyl)-1,2-dihydropyridine-3-carboxamide (compound 13). Determined by X-ray diffraction at 2.24 Å resolution. Released 6 Aug 2025.

Method
X-ray diffraction
Resolution
2.24 Å
Organism
Influenza A virus (A/(Puerto Rico/8/1934-Korea/426/1968)(H2N2))
Chains
2
Atoms
7,071
Mol. weight
113.96 kDa
Ligands
A1CEF, MG
Released
6 Aug 2025

Explore 9OTW in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9OTW contains 52 α-helices and 26 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 29 helices, 15 β-strands

ElementResiduesLengthSheet
α-helix22-4625
α-helix51-555
β-strand5611
α-helix57-7216
β-strand91-9222
β-strand95-10063
β-strand103-10863
β-strand111-11222
α-helix113-12311
α-helix130-14718
β-strand14914
α-helix151-1566
α-helix161-1666
α-helix178-1814
α-helix186-20217
α-helix204-2063
α-helix209-22921
α-helix233-24311
α-helix250-26213
α-helix275-2773
α-helix278-2869
α-helix291-2944
α-helix301-3088
β-strand313-31641
α-helix322-33312
α-helix341-3488
α-helix351-3544
α-helix355-3573
α-helix371-3733
β-strand375-37841
β-strand385-38625
β-strand417-41826
α-helix419-4213
α-helix422-4287
α-helix439-45113
β-strand456-45726
β-strand46317
β-strand464-46525
α-helix4741
β-strand47517
α-helix476-4772
α-helix493-4942
β-strand49514
α-helix4961
Chain B: 23 helices, 11 β-strands
ElementResiduesLengthSheet
α-helix21-4626
α-helix51-555
β-strand5618
α-helix57-7216
β-strand91-100109
β-strand103-112109
α-helix113-12311
α-helix130-14718
β-strand149110
α-helix151-1566
α-helix161-1666
α-helix179-1835
α-helix186-20217
α-helix209-22820
α-helix233-24412
α-helix250-26213
α-helix278-2869
α-helix291-2944
α-helix301-3088
β-strand313-31648
α-helix322-33312
α-helix341-3488
α-helix355-3573
α-helix365-3662
α-helix371-3733
β-strand375-37848
β-strand386111
α-helix440-4489
β-strand463112
β-strand464111
β-strand475112
α-helix476-4783
α-helix493-4942
β-strand495110

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
NucleoproteinA, Bprotein498Influenza A virus (A/(Puerto Rico/8/1934-Korea/426/1968)(H2N2))S5G2J2
Sequence of entity 1 (A, B), FASTA
>9OTW_1 Nucleoprotein (chains A, B)
MRSYEQMETDGERQNATEIRASVGKMIGGIGRFYIQMCTELKLSDYEGRLIQNSLTIERM
VLSAFDERRNKYLEEHPSAGKDPKKTGGPIYRRVNGKWMRELILYDKEEIRRIWRQANNG
DDATAGLTHMMIWHSNLNDATYQRTRALVRTGMDPRMCSLMQGSTLPRRSGAAGAAVKGV
GTMVMELVRMIKRGINDRNFWRGENGRKTRIAYERMCNILKGKFQTAAQKAMMDQVRESR
NPGNAEFEDLTFLARSALILRGSVAHKSCLPACVYGPAVASGYDFEREGYSLVGIDPFRL
LQNSQVYSLIRPNENPAHKSQLVWMACHSAAFEDLRVLSFIKGTKVLPRGKLSTRGVQIA
SNENMETMESSTLELRSRYWAIRTRSGGNTNQQRASAGQISIQPTFSVQRNLPFDRTTIM
AAFNGNTEGRTSDMRTEIIRMMESARPEDVSFQGRGVFELSDEKAASPIVPSFDMSNEGS
YFFGDNAEEYDNHHHHHH

Ligands and cofactors

IDNameFormulaCopies
A1CEF5-(4-{[(2R)-6,6-dimethyl-1,4-dioxan-2-yl]methoxy}phenyl)-2-oxo-6-(trifluorometh…C20 H21 F3 N2 O52
MGMagnesium ionMg1

Primary citation

Discovery and Optimization of a Novel Series of Influenza A Virus Replication Inhibitors Targeting the Nucleoprotein Protein-Protein Interaction. Taft, B.R., Hesse, M.J., Mamo, M. et al. J Med Chem (2025) 68:16349-16370. DOI 10.1021/acs.jmedchem.5c01233 · PubMed

Other PDB entries of the same protein (UniProt S5G2J2), best resolution first:

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