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PGLYRP1 (peptidoglycan recognition protein 1)

Identity

Alias_namesTNFSF3L
PGLYRP
peptidoglycan recognition protein
Alias_symbol (synonym)TAG7
PGRP
PGRP-S
PGRPS
Other alias
HGNC (Hugo) PGLYRP1
LocusID (NCBI) 8993
Atlas_Id 51175
Location 19q13.32  [Link to chromosome band 19q13]
Location_base_pair Starts at 46019155 and ends at 46023298 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)

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)PGLYRP1   8904
Cards
Entrez_Gene (NCBI)PGLYRP1  8993  peptidoglycan recognition protein 1
AliasesPGLYRP; PGRP; PGRP-S; PGRPS; 
TAG7; TNFSF3L
GeneCards (Weizmann)PGLYRP1
Ensembl hg19 (Hinxton)ENSG00000008438 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000008438 [Gene_View]  ENSG00000008438 [Sequence]  chr19:46019155-46023298 [Contig_View]  PGLYRP1 [Vega]
ICGC DataPortalENSG00000008438
TCGA cBioPortalPGLYRP1
AceView (NCBI)PGLYRP1
Genatlas (Paris)PGLYRP1
WikiGenes8993
SOURCE (Princeton)PGLYRP1
Genetics Home Reference (NIH)PGLYRP1
Genomic and cartography
GoldenPath hg38 (UCSC)PGLYRP1  -     chr19:46019155-46023298 -  19q13.32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PGLYRP1  -     19q13.32   [Description]    (hg19-Feb_2009)
EnsemblPGLYRP1 - 19q13.32 [CytoView hg19]  PGLYRP1 - 19q13.32 [CytoView hg38]
Mapping of homologs : NCBIPGLYRP1 [Mapview hg19]  PGLYRP1 [Mapview hg38]
OMIM604963   
Gene and transcription
Genbank (Entrez)AF076483 AF242517 AY358936 BC096154 BC096155
RefSeq transcript (Entrez)NM_005091
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PGLYRP1
Cluster EST : UnigeneHs.137583 [ NCBI ]
CGAP (NCI)Hs.137583
Alternative Splicing GalleryENSG00000008438
Gene ExpressionPGLYRP1 [ NCBI-GEO ]   PGLYRP1 [ EBI - ARRAY_EXPRESS ]   PGLYRP1 [ SEEK ]   PGLYRP1 [ MEM ]
Gene Expression Viewer (FireBrowse)PGLYRP1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8993
GTEX Portal (Tissue expression)PGLYRP1
Human Protein AtlasENSG00000008438-PGLYRP1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75594   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75594  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75594
Splice isoforms : SwissVarO75594
PhosPhoSitePlusO75594
Domains : Interpro (EBI)Amidase/PGRP_sf    Amidase_domain    Peptidoglycan_recognition    PGRP    PGRP_domain_met/bac   
Domain families : Pfam (Sanger)Amidase_2 (PF01510)   
Domain families : Pfam (NCBI)pfam01510   
Domain families : Smart (EMBL)Ami_2 (SM00644)  PGRP (SM00701)  
Conserved Domain (NCBI)PGLYRP1
DMDM Disease mutations8993
Blocks (Seattle)PGLYRP1
PDB (RSDB)1YCK   
PDB Europe1YCK   
PDB (PDBSum)1YCK   
PDB (IMB)1YCK   
Structural Biology KnowledgeBase1YCK   
SCOP (Structural Classification of Proteins)1YCK   
CATH (Classification of proteins structures)1YCK   
SuperfamilyO75594
Human Protein Atlas [tissue]ENSG00000008438-PGLYRP1 [tissue]
Peptide AtlasO75594
HPRD05393
IPIIPI00021085   
Protein Interaction databases
DIP (DOE-UCLA)O75594
IntAct (EBI)O75594
FunCoupENSG00000008438
BioGRIDPGLYRP1
STRING (EMBL)PGLYRP1
ZODIACPGLYRP1
Ontologies - Pathways
QuickGOO75594
Ontology : AmiGOpattern recognition receptor signaling pathway  extracellular region  extracellular region  extracellular space  zinc ion binding  N-acetylmuramoyl-L-alanine amidase activity  peptidoglycan catabolic process  peptidoglycan receptor activity  peptidoglycan receptor activity  detection of bacterium  detection of bacterium  antimicrobial humoral response  antimicrobial humoral response  killing of cells of other organism  killing of cells of other organism  negative regulation of interferon-gamma production  negative regulation of natural killer cell differentiation involved in immune response  specific granule lumen  peptidoglycan binding  peptidoglycan binding  neutrophil degranulation  growth of symbiont in host  innate immune response  negative regulation of inflammatory response  defense response to Gram-positive bacterium  defense response to Gram-positive bacterium  positive regulation of cytolysis in other organism  positive regulation of cytolysis in other organism  antimicrobial humoral immune response mediated by antimicrobial peptide  antimicrobial humoral immune response mediated by antimicrobial peptide  extracellular exosome  phagocytic vesicle lumen  tertiary granule lumen  
Ontology : EGO-EBIpattern recognition receptor signaling pathway  extracellular region  extracellular region  extracellular space  zinc ion binding  N-acetylmuramoyl-L-alanine amidase activity  peptidoglycan catabolic process  peptidoglycan receptor activity  peptidoglycan receptor activity  detection of bacterium  detection of bacterium  antimicrobial humoral response  antimicrobial humoral response  killing of cells of other organism  killing of cells of other organism  negative regulation of interferon-gamma production  negative regulation of natural killer cell differentiation involved in immune response  specific granule lumen  peptidoglycan binding  peptidoglycan binding  neutrophil degranulation  growth of symbiont in host  innate immune response  negative regulation of inflammatory response  defense response to Gram-positive bacterium  defense response to Gram-positive bacterium  positive regulation of cytolysis in other organism  positive regulation of cytolysis in other organism  antimicrobial humoral immune response mediated by antimicrobial peptide  antimicrobial humoral immune response mediated by antimicrobial peptide  extracellular exosome  phagocytic vesicle lumen  tertiary granule lumen  
NDEx NetworkPGLYRP1
Atlas of Cancer Signalling NetworkPGLYRP1
Wikipedia pathwaysPGLYRP1
Orthology - Evolution
OrthoDB8993
GeneTree (enSembl)ENSG00000008438
Phylogenetic Trees/Animal Genes : TreeFamPGLYRP1
HOGENOMO75594
Homologs : HomoloGenePGLYRP1
Homology/Alignments : Family Browser (UCSC)PGLYRP1
Gene fusions - Rearrangements
Fusion : QuiverPGLYRP1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPGLYRP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PGLYRP1
dbVarPGLYRP1
ClinVarPGLYRP1
1000_GenomesPGLYRP1 
Exome Variant ServerPGLYRP1
ExAC (Exome Aggregation Consortium)ENSG00000008438
GNOMAD BrowserENSG00000008438
Varsome BrowserPGLYRP1
Genetic variants : HAPMAP8993
Genomic Variants (DGV)PGLYRP1 [DGVbeta]
DECIPHERPGLYRP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPGLYRP1 
Mutations
ICGC Data PortalPGLYRP1 
TCGA Data PortalPGLYRP1 
Broad Tumor PortalPGLYRP1
OASIS PortalPGLYRP1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPGLYRP1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPGLYRP1
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
BioMutasearch PGLYRP1
DgiDB (Drug Gene Interaction Database)PGLYRP1
DoCM (Curated mutations)PGLYRP1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PGLYRP1 (select a term)
intoGenPGLYRP1
Cancer3DPGLYRP1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604963   
Orphanet
DisGeNETPGLYRP1
MedgenPGLYRP1
Genetic Testing Registry PGLYRP1
NextProtO75594 [Medical]
TSGene8993
GENETestsPGLYRP1
Target ValidationPGLYRP1
Huge Navigator PGLYRP1 [HugePedia]
snp3D : Map Gene to Disease8993
BioCentury BCIQPGLYRP1
ClinGenPGLYRP1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8993
Chemical/Pharm GKB GenePA33241
Clinical trialPGLYRP1
Miscellaneous
canSAR (ICR)PGLYRP1 (select the gene name)
DataMed IndexPGLYRP1
Probes
Litterature
PubMed39 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePGLYRP1
EVEXPGLYRP1
GoPubMedPGLYRP1
iHOPPGLYRP1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jan 17 18:30:31 CET 2019

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