Structure of PDB 5yud Chain A

Receptor sequence

>5yudA (length=1238) Species: 10090 (Mus musculus)

DRISEIDYEFLPELSALLGVDAFQVAKSQEEEEHKERMKMKKGFNSQMRS
EAKRLKTFETYDTFRSWTPQEMAAAGFYHTGVRLGVQCFCCSLILFGNSL
RKLPIERHKKLRPECEFLQGKDVGNIGKYDIRVKRPEKMLRGGKARYHEE
EARLESFEDWPFYAHGTSPRVLSAAGFVFTGKRDTVQCFSCGGSLGNWEE
GDDPWKEHAKWFPKCEFLQSKKSSEEIAQYIQSYEGFVSEQLRDNYTKAT
FRHMNLPEVCSSLGTDHLLSCDVSIISKHISQPVQEALTIPEVFSNLNSV
MCVEGETGSGKTTFLKRIAFLWASGCCPLLYRFQLVFYLSLSSITPDQGL
ANIICAQLLGAGGCISEVCLSSSIQQLQHQVLFLLDDYSGLASLPQALHT
LITKNYLSRTCLLIAVHTNRVRDIRLYLGTSLEIQEFPFYNTVSVLRKFF
SHDIICVEKLIIYFIDNKDLQGVYKTPLFVAAVCTDWIQNASAQDKFQDV
TLFQSYMQYLSLKYKATAEPLQATVSSCGQLALTGLFSSCFEFNSDDLAE
AGVDEDEKLTTLLMSKFTAQRLRPVYRFLGPLFQEFLAAVRLTELLSSDR
QEDQDLGLYYLRQIDSPLKAINSFNIFLYYVSSHSSSKAAPTVVSHLLQL
VDEKESLENMSENEDYMKLHPQTFLWFQFVRGLWLVSPESSSSFVSEHLL
RLALIFAYESNTVAECSPFILQFLRGKTLALRVLNLQYFRDHPESLLLLR
SLKVSINGNKMSSYVDYSFKTYFENLQPPAIDEEYTSAFEHISEWRRNFA
QDEEIIKNYENIRPRALPDISEGYWKLSPKPCKIPKLEVQVNNTDAADQA
LLQVLMEVFSASQSIEFRLFNSSGFLESICPALELSKASVTKCSMSRLEL
SRAEQELLLTLPALQSLEVSETNQLPEQLFHNLHKFLGLKELCVRLDGKP
NVLSVLPREFPNLLHMEKLSIQTSTESDLSKLVKFIQNFPNLHVFHLKCD
FLSNCESLMAVLASCKKLREIEFSGRCFEAMTFVNILPNFVSLKILNLKD
QQFPDKETSEKFAQALGSLRNLEELLVPTGDGIHQVAKLIVRQCLQLPCL
RVLTFHDILDDDSVIEIARAATSGGFQKLENLDISMNHKITEEGYRNFFQ
ALDNLPNLQELNICRNIPGRIQVQATTVKALGQCVSRLPSLIRLHMLSWL
LDEEDMKVINDVKERHPQSKRLIIFWKLIVPFSPVILE

3D structure

• PDB: 5yud Structural basis for specific flagellin recognition by the NLR protein NAIP5.
• Chain: A
• Resolution: 4.28 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ATP	A	C436 T472 G473 G475 K476 T477 T478 P642	C271 T307 G308 G310 K311 T312 T313 P477

Gene Ontology

Molecular Function

• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0043027 cysteine-type endopeptidase inhibitor activity involved in apoptotic process
• GO:0046872 metal ion binding

Biological Process

• GO:0006915 apoptotic process
• GO:0006954 inflammatory response
• GO:0016045 detection of bacterium
• GO:0032731 positive regulation of interleukin-1 beta production
• GO:0042742 defense response to bacterium
• GO:0043066 negative regulation of apoptotic process
• GO:0045087 innate immune response
• GO:0046718 symbiont entry into host cell
• GO:0050829 defense response to Gram-negative bacterium
• GO:0070269 pyroptotic inflammatory response

Cellular Component

• GO:0072557 IPAF inflammasome complex

External links

• PDB: RCSB:5yud, PDBe:5yud, PDBj:5yud
• PDBsum: 5yud
• PubMed: 29182158
• UniProt: Q9R016|BIR1E_MOUSE Baculoviral IAP repeat-containing protein 1e (Gene Name=Naip5)