Atlas of Genetics and Cytogenetics in Oncology and Haematology

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NOD1 (nucleotide binding oligomerization domain containing 1)

Identity

Alias_namesCARD4
caspase recruitment domain family, member 4
Alias_symbol (synonym)NLRC1
CLR7.1
Other alias
HGNC (Hugo) NOD1
LocusID (NCBI) 10392
Atlas_Id 912
Location 7p14.3  [Link to chromosome band 7p14]
Location_base_pair Starts at 30424527 and ends at 30478784 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
NOD1 (7p14.3) / NOD1 (7p14.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)NOD1   16390
Cards
Entrez_Gene (NCBI)NOD1  10392  nucleotide binding oligomerization domain containing 1
AliasesCARD4; CLR7.1; NLRC1
GeneCards (Weizmann)NOD1
Ensembl hg19 (Hinxton)ENSG00000106100 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000106100 [Gene_View]  ENSG00000106100 [Sequence]  chr7:30424527-30478784 [Contig_View]  NOD1 [Vega]
ICGC DataPortalENSG00000106100
TCGA cBioPortalNOD1
AceView (NCBI)NOD1
Genatlas (Paris)NOD1
WikiGenes10392
SOURCE (Princeton)NOD1
Genetics Home Reference (NIH)NOD1
Genomic and cartography
GoldenPath hg38 (UCSC)NOD1  -     chr7:30424527-30478784 -  7p14.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)NOD1  -     7p14.3   [Description]    (hg19-Feb_2009)
GoldenPathNOD1 - 7p14.3 [CytoView hg19]  NOD1 - 7p14.3 [CytoView hg38]
Genome Data Viewer NCBINOD1 [Mapview hg19]  
OMIM605980   
Gene and transcription
Genbank (Entrez)AA845215 AF113925 AF126484 AK023969 AK300367
RefSeq transcript (Entrez)NM_001354849 NM_006092
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)NOD1
Alternative Splicing GalleryENSG00000106100
Gene ExpressionNOD1 [ NCBI-GEO ]   NOD1 [ EBI - ARRAY_EXPRESS ]   NOD1 [ SEEK ]   NOD1 [ MEM ]
Gene Expression Viewer (FireBrowse)NOD1 [ Firebrowse - Broad ]
GenevisibleExpression of NOD1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10392
GTEX Portal (Tissue expression)NOD1
Human Protein AtlasENSG00000106100-NOD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y239   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y239  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y239
Splice isoforms : SwissVarQ9Y239
PhosPhoSitePlusQ9Y239
Domaine pattern : Prosite (Expaxy)CARD (PS50209)    NACHT (PS50837)   
Domains : Interpro (EBI)CARD    DEATH-like_dom_sf    Leu-rich_rpt    LRR_dom_sf    NACHT_NTPase    NLRC_HD2    NOD2_WH   
Domain families : Pfam (Sanger)CARD (PF00619)    LRR_6 (PF13516)    NACHT (PF05729)    NLRC4_HD2 (PF17776)    NOD2_WH (PF17779)   
Domain families : Pfam (NCBI)pfam00619    pfam13516    pfam05729    pfam17776    pfam17779   
Conserved Domain (NCBI)NOD1
DMDM Disease mutations10392
PDB (RSDB)2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
PDB Europe2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
PDB (PDBSum)2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
PDB (IMB)2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
Structural Biology KnowledgeBase2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
SCOP (Structural Classification of Proteins)2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
CATH (Classification of proteins structures)2B1W    2DBD    2NSN    2NZ7    4E9M    4JQW   
SuperfamilyQ9Y239
Human Protein Atlas [tissue]ENSG00000106100-NOD1 [tissue]
Peptide AtlasQ9Y239
HPRD05815
IPIIPI00005776   IPI00910180   IPI00916706   IPI00917279   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y239
IntAct (EBI)Q9Y239
FunCoupENSG00000106100
BioGRIDNOD1
STRING (EMBL)NOD1
ZODIACNOD1
Ontologies - Pathways
QuickGOQ9Y239
Ontology : AmiGOactivation of MAPK activity  pattern recognition receptor signaling pathway  positive regulation of dendritic cell antigen processing and presentation  protein binding  ATP binding  cytoplasm  cytoplasm  cytosol  cytosol  apoptotic process  activation of cysteine-type endopeptidase activity involved in apoptotic process  defense response  inflammatory response  signal transduction  JNK cascade  cysteine-type endopeptidase activator activity involved in apoptotic process  detection of biotic stimulus  detection of bacterium  basolateral plasma membrane  apical plasma membrane  positive regulation of interleukin-1 beta production  positive regulation of interleukin-6 production  positive regulation of tumor necrosis factor production  intracellular signal transduction  intracellular signal transduction  pattern recognition receptor activity  interleukin-8 biosynthetic process  defense response to bacterium  identical protein binding  identical protein binding  protein homodimerization activity  peptidoglycan binding  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  protein-containing complex binding  innate immune response  positive regulation of JNK cascade  anchored component of plasma membrane  CARD domain binding  defense response to Gram-positive bacterium  positive regulation of nitric-oxide synthase activity  positive regulation of NF-kappaB transcription factor activity  positive regulation of NF-kappaB transcription factor activity  positive regulation of ERK1 and ERK2 cascade  nucleotide-binding oligomerization domain containing signaling pathway  interleukin-1-mediated signaling pathway  cellular response to muramyl dipeptide  positive regulation of NIK/NF-kappaB signaling  positive regulation of xenophagy  
Ontology : EGO-EBIactivation of MAPK activity  pattern recognition receptor signaling pathway  positive regulation of dendritic cell antigen processing and presentation  protein binding  ATP binding  cytoplasm  cytoplasm  cytosol  cytosol  apoptotic process  activation of cysteine-type endopeptidase activity involved in apoptotic process  defense response  inflammatory response  signal transduction  JNK cascade  cysteine-type endopeptidase activator activity involved in apoptotic process  detection of biotic stimulus  detection of bacterium  basolateral plasma membrane  apical plasma membrane  positive regulation of interleukin-1 beta production  positive regulation of interleukin-6 production  positive regulation of tumor necrosis factor production  intracellular signal transduction  intracellular signal transduction  pattern recognition receptor activity  interleukin-8 biosynthetic process  defense response to bacterium  identical protein binding  identical protein binding  protein homodimerization activity  peptidoglycan binding  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  protein-containing complex binding  innate immune response  positive regulation of JNK cascade  anchored component of plasma membrane  CARD domain binding  defense response to Gram-positive bacterium  positive regulation of nitric-oxide synthase activity  positive regulation of NF-kappaB transcription factor activity  positive regulation of NF-kappaB transcription factor activity  positive regulation of ERK1 and ERK2 cascade  nucleotide-binding oligomerization domain containing signaling pathway  interleukin-1-mediated signaling pathway  cellular response to muramyl dipeptide  positive regulation of NIK/NF-kappaB signaling  positive regulation of xenophagy  
Pathways : KEGGNOD-like receptor signaling pathway    Epithelial cell signaling in Helicobacter pylori infection    Shigellosis    Pertussis   
NDEx NetworkNOD1
Atlas of Cancer Signalling NetworkNOD1
Wikipedia pathwaysNOD1
Orthology - Evolution
OrthoDB10392
GeneTree (enSembl)ENSG00000106100
Phylogenetic Trees/Animal Genes : TreeFamNOD1
HOGENOMQ9Y239
Homologs : HomoloGeneNOD1
Homology/Alignments : Family Browser (UCSC)NOD1
Gene fusions - Rearrangements
Fusion : QuiverNOD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerNOD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)NOD1
dbVarNOD1
ClinVarNOD1
1000_GenomesNOD1 
Exome Variant ServerNOD1
GNOMAD BrowserENSG00000106100
Varsome BrowserNOD1
Genetic variants : HAPMAP10392
Genomic Variants (DGV)NOD1 [DGVbeta]
DECIPHERNOD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisNOD1 
Mutations
ICGC Data PortalNOD1 
TCGA Data PortalNOD1 
Broad Tumor PortalNOD1
OASIS PortalNOD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICNOD1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DNOD1
Mutations and Diseases : HGMDNOD1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutaselect NOD1
DgiDB (Drug Gene Interaction Database)NOD1
DoCM (Curated mutations)NOD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)NOD1 (select a term)
intoGenNOD1
Cancer3DNOD1 (select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605980   
Orphanet
DisGeNETNOD1
MedgenNOD1
Genetic Testing Registry NOD1
NextProtQ9Y239 [Medical]
TSGene10392
GENETestsNOD1
Open Targets GeneticsENSG00000106100  [validation]
snp3D : Map Gene to Disease10392
BioCentury BCIQNOD1
ClinGenNOD1
Clinical trials, drugs, therapy
Protein Interactions : CTD10392
Pharm GKB GenePA162398098
Clinical trialNOD1
Miscellaneous
canSAR (ICR)NOD1 (select the gene name)
HarmonizomeNOD1
DataMed IndexNOD1
Probes
Litterature
PubMed224 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineNOD1
EVEXNOD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Jul 11 20:02:39 CEST 2020
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