Gene Gene information from NCBI Gene database.
Entrez ID 58484
Gene name NLR family CARD domain containing 4
Gene symbol NLRC4
Synonyms (NCBI Gene)
AIFECCARD12CLANCLAN1CLANACLANBCLANCCLANDCLR2.1FCAS4IPAF
Chromosome 2
Chromosome location 2p22.3
Summary This gene encodes a member of the caspase recruitment domain-containing NLR family. Family members play essential roles in innate immune response to a wide range of pathogenic organisms, tissue damage and other cellular stresses. Mutations in this gene re
SNPs SNP information provided by dbSNP.
7
SNP ID Visualize variation Clinical significance Consequence
rs587777840 T>A Pathogenic Intron variant, missense variant, non coding transcript variant, coding sequence variant
rs587781260 A>G Pathogenic Intron variant, missense variant, non coding transcript variant, coding sequence variant
rs606231460 T>G Pathogenic Intron variant, missense variant, non coding transcript variant, coding sequence variant
rs1057518687 G>A Likely-pathogenic Missense variant, coding sequence variant, non coding transcript variant, intron variant
rs1064795274 C>T Likely-pathogenic Missense variant, coding sequence variant, non coding transcript variant, intron variant
miRNA miRNA information provided by mirtarbase database.
1
miRTarBase ID miRNA Experiments Reference
MIRT017182 hsa-miR-335-5p Microarray 18185580
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
TP53 Activation 15580302
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
51
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0000287 Function Magnesium ion binding TAS 15882992
GO:0002218 Process Activation of innate immune response IEA
GO:0002218 Process Activation of innate immune response ISS
GO:0002221 Process Pattern recognition receptor signaling pathway NAS 21918512
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
606831 16412 ENSG00000091106
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q9NPP4
Protein name NLR family CARD domain-containing protein 4 (CARD, LRR, and NACHT-containing protein) (CED-4-like protein Clan) (Caspase recruitment domain-containing protein 12) (Ice protease-activating factor) (Ipaf)
Protein function Key component of inflammasomes that indirectly senses specific proteins from pathogenic bacteria and fungi and responds by assembling an inflammasome complex that promotes caspase-1 activation, cytokine production and macrophage pyroptosis (PubM
PDB 6K8J , 6MKS , 6N1I , 8FVU , 8FW2 , 8FW9
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00619 CARD 1 87 Caspase recruitment domain Domain
PF05729 NACHT 163 316 NACHT domain Domain
PF17889 NLRC4_HD 465 579 NLRC4 helical domain Domain
Tissue specificity TISSUE SPECIFICITY: Isoform 2 is expressed ubiquitously, although highly expressed in lung and spleen. Isoform 1 is highly expressed in lung, followed by leukocytes especially monocytes, lymph node, colon, brain, prostate, placenta, spleen, bone marrow an
Sequence
MNFIKDNSRALIQRMGMTVIKQITDDLFVWNVLNREEVNIICCEKVEQDAARGIIHMILK
KGSESCNLFLKSLKEWNYPLFQDLNGQ
SLFHQTSEGDLDDLAQDLKDLYHTPSFLNFYPL
GEDIDIIFNLKSTFTEPVLWRKDQHHHRVEQLTLNGLLQALQSPCIIEGESGKGKSTLLQ
RIAMLWGSGKCKALTKFKFVFFLRLSRAQGGLFETLCDQLLDIPGTIRKQTFMAMLLKLR
QRVLFLLDGYNEFKPQNCPEIEALIKENHRFKNMVIVTTTTECLRHIRQFGALTAEVGDM
TEDSAQALIREVLIKE
LAEGLLLQIQKSRCLRNLMKTPLFVVITCAIQMGESEFHSHTQT
TLFHTFYDLLIQKNKHKHKGVAASDFIRSLDHCGDLALEGVFSHKFDFELQDVSSVNEDV
LLTTGLLCKYTAQRFKPKYKFFHKSFQEYTAGRRLSSLLTSHEPEEVTKGNGYLQKMVSI
SDITSTYSSLLRYTCGSSVEATRAVMKHLAAVYQHGCLLGLSIAKRPLWRQESLQSVKNT
TEQEILKAININSFVECGIHLYQESTSKSALSQEFEAFF
QGKSLYINSGNIPDYLFDFFE
HLPNCASALDFIKLDFYGGAMASWEKAAEDTGGIHMEEAPETYIPSRAVSLFFNWKQEFR
TLEVTLRDFSKLNKQDIRYLGKIFSSATSLRLQIKRCAGVAGSLSLVLSTCKNIYSLMVE
ASPLTIEDERHITSVTNLKTLSIHDLQNQRLPGGLTDSLGNLKNLTKLIMDNIKMNEEDA
IKLAEGLKNLKKMCLFHLTHLSDIGEGMDYIVKSLSSEPCDLEEIQLVSCCLSANAVKIL
AQNLHNLVKLSILDLSENYLEKDGNEALHELIDRMNVLEQLTALMLPWGCDVQGSLSSLL
KHLEEVPQLVKLGLKNWRLTDTEIRILGAFFGKNPLKNFQQLNLAGNRVSSDGWLAFMGV
FENLKQLVFFDFSTKEFLPDPALVRKLSQVLSKLTFLQEARLVGWQFDDDDLSVITGAFK
LVTA
Sequence length 1024
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  NOD-like receptor signaling pathway
Shigellosis
Salmonella infection
Legionellosis
Yersinia infection
  TP53 Regulates Transcription of Caspase Activators and Caspases
The IPAF inflammasome
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
14
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Autoinflammatory syndrome Likely pathogenic rs1553347334, rs774546369 RCV002262078
RCV002262087
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Familial cold autoinflammatory syndrome 4 Pathogenic; Likely pathogenic rs2148942588, rs587781260, rs587777840, rs606231460, rs2466760157 RCV001730172
RCV001857479
RCV001382868
RCV000148929
RCV005227784
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Periodic fever-infantile enterocolitis-autoinflammatory syndrome Pathogenic; Likely pathogenic rs587781260, rs587777840, rs606231460, rs2466760157, rs1687057544, rs2466764015, rs1057518687 RCV000144517
RCV000144518
RCV001227277
RCV005227784
RCV003126395
View all (3 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Syndrome of entercolitis and autoinflmmation caused by mutation of NLRC4 (SCAN4) Pathogenic rs587781260 RCV000132764
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Atopic eczema Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOINFLAMMATION WITH INFANTILE ENTEROCOLITIS CTD, Disgenet, HPO
CTD, Disgenet, HPO
CTD, Disgenet, HPO
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cholangiocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Clear cell carcinoma of kidney Benign; Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acute Coronary Syndrome Coronary Syndrome BEFREE 25747584
★☆☆☆☆
Found in Text Mining only
Anemia Anemia HPO_DG
★☆☆☆☆
Found in Text Mining only
Arthralgia Arthralgia Pubtator 34248956, 34783940 Associate
★☆☆☆☆
Found in Text Mining only
Arthritis Arthritis BEFREE 25385754
★☆☆☆☆
Found in Text Mining only
Arthritis Arthritis Pubtator 31870725 Associate
★☆☆☆☆
Found in Text Mining only
Arthritis Arthritis HPO_DG
★☆☆☆☆
Found in Text Mining only
Arthritis Juvenile Juvenile arthritis Pubtator 30619348 Associate
★☆☆☆☆
Found in Text Mining only
Arthritis Rheumatoid Rheumatoid arthritis Pubtator 36194479, 37659984 Associate
★☆☆☆☆
Found in Text Mining only
Astrocytoma Astrocytoma BEFREE 31133717
★☆☆☆☆
Found in Text Mining only
Astrocytoma Astrocytoma Pubtator 31133717 Stimulate
★☆☆☆☆
Found in Text Mining only