5YUD

Flagellin derivative in complex with the NLR protein NAIP5

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF05729	NACHT domain (NACHT)	NACHT domain	This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation [1]. This family is closely related to Pfam:PF00931.	Domain
A	PF00653	Inhibitor of Apoptosis domain (BIR)	Inhibitor of Apoptosis domain	BIR stands for 'Baculovirus Inhibitor of apoptosis protein Repeat'. It is found repeated in inhibitor of apoptosis proteins (IAPs), and in fact it is also known as IAP repeat. These domains characteristically have a number of invariant residues, incl ...	BIR stands for 'Baculovirus Inhibitor of apoptosis protein Repeat'. It is found repeated in inhibitor of apoptosis proteins (IAPs), and in fact it is also known as IAP repeat. These domains characteristically have a number of invariant residues, including 3 conserved cysteines and one conserved histidine that coordinate a zinc ion. They are usually made up of 4-5 alpha helices and a three-stranded beta-sheet. BIR is also found in other proteins known as BIR-domain-containing proteins (BIRPs), such as Survivin (Swiss:O15392) [2].	Domain
A	PF17889	NLRC4 helical domain (NLRC4_HD)	NLRC4 helical domain	This is a helical domain found in NLRC4 , Nucleotide-binding and oligomerization domain-like receptor (NLR) proteins. Structural and functional studies indicate that the helical domain HD2 repressively contacted a conserved and functionally important ...	This is a helical domain found in NLRC4 , Nucleotide-binding and oligomerization domain-like receptor (NLR) proteins. Structural and functional studies indicate that the helical domain HD2 repressively contacted a conserved and functionally important alpha-helix of the NBD (nucleotide binding domain) in Swiss:Q3UP24. Furthermore, the HD2 domain was shown to cap the N-terminal side of the LRR (leucine-rich repeat) domain via extensive interactions [1]. Other family members carrying this domain include baculoviral IAP repeat-containing protein 1 (Birc1) also known as neuronal apoptosis inhibitory protein (Naip).	Domain
A	PF17779	NOD2 winged helix domain (NOD2_WH)	NOD2 winged helix domain	This winged helix domain is found in the NOD2 protein [1]. Its molecular function is not known.	Domain
B [auth C]	PF00700	Bacterial flagellin C-terminal helical region (Flagellin_C)	Bacterial flagellin C-terminal helical region	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Baculoviral IAP repeat-containing protein 1e	enzyme regulator activity cysteine-type endopeptidase inhibitor activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding enzyme regulator activity cysteine-type endopeptidase inhibitor activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein binding protein serine/threonine kinase binding kinase binding enzyme binding protein kinase binding cation binding metal ion binding	biological process involved in interspecies interaction between organisms entry of bacterium into host cell symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process biological process involved in interspecies interaction between organisms entry of bacterium into host cell symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death pyroptosis response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus detection of external biotic stimulus detection of biotic stimulus detection of bacterium detection of stimulus response to bacterium detection of other organism defense response to bacterium multicellular organismal process interleukin-1 production cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process regulation of interleukin-1 beta production positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of interleukin-1 beta production organic substance metabolic process positive regulation of biosynthetic process regulation of cytokine production organic substance biosynthetic process cytokine production regulation of multicellular organismal process positive regulation of interleukin-1 production positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of interleukin-1 production cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process interleukin-1 beta production positive regulation of gene expression positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process positive regulation of cellular biosynthetic process cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus positive regulation of JNK cascade regulation of intracellular signal transduction JNK cascade intracellular signaling cassette signal transduction regulation of signaling positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication positive regulation of signaling defense response to Gram-negative bacterium inflammatory response response to organic substance negative regulation of signaling response to cytokine negative regulation of cell communication cytokine-mediated signaling pathway cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus cellular response to organic substance cell surface receptor signaling pathway regulation of tumor necrosis factor-mediated signaling pathway negative regulation of response to stimulus regulation of cytokine-mediated signaling pathway negative regulation of tumor necrosis factor-mediated signaling pathway negative regulation of signal transduction regulation of response to cytokine stimulus cellular response to chemical stimulus negative regulation of response to cytokine stimulus negative regulation of cytokine-mediated signaling pathway response to chemical response to tumor necrosis factor	somatodendritic compartment cell body perikaryon neuronal cell body cellular anatomical entity canonical inflammasome complex protein-containing complex intracellular anatomical structure IPAF inflammasome complex cytoplasm cytosol
B [auth C]	Phase 2 flagellin,Flagellin	structural molecule activity	-	cell projection organelle cellular anatomical entity bacterial-type flagellum non-membrane-bounded organelle extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR040535	NLRC4, helical domain	Domain
A	IPR007111	NACHT nucleoside triphosphatase	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR001370	BIR repeat	Repeat
A	IPR041075	NOD2, winged helix domain	Domain
A	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A	IPR028789	Baculoviral IAP repeat-containing protein 1	Family
B [auth C]	IPR049365	Flagellin, barrel domain	Domain
B [auth C]	IPR046358	Flagellin, C-terminal domain	Domain
B [auth C]	IPR014981	Flagellin D3	Domain
B [auth C]	IPR001029	Flagellin, N-terminal domain	Domain
B [auth C]	IPR042187	Flagellin, C-terminal domain, subdomain 2	Homologous Superfamily
B [auth C]	IPR001492	Flagellin	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.