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PGLYRP4 (peptidoglycan recognition protein 4)

Identity

Alias_symbol (synonym)SBBI67
PGRPIB
PGLYRPIbeta
PGRP-Ibeta
Other alias
HGNC (Hugo) PGLYRP4
LocusID (NCBI) 57115
Atlas_Id 71866
Location 1q21.3  [Link to chromosome band 1q21]
Location_base_pair Starts at 153330121 and ends at 153348841 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)PGLYRP4   30015
Cards
Entrez_Gene (NCBI)PGLYRP4  57115  peptidoglycan recognition protein 4
AliasesPGLYRPIbeta; PGRP-Ibeta; PGRPIB; SBBI67
GeneCards (Weizmann)PGLYRP4
Ensembl hg19 (Hinxton)ENSG00000163218 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000163218 [Gene_View]  chr1:153330121-153348841 [Contig_View]  PGLYRP4 [Vega]
ICGC DataPortalENSG00000163218
TCGA cBioPortalPGLYRP4
AceView (NCBI)PGLYRP4
Genatlas (Paris)PGLYRP4
WikiGenes57115
SOURCE (Princeton)PGLYRP4
Genetics Home Reference (NIH)PGLYRP4
Genomic and cartography
GoldenPath hg38 (UCSC)PGLYRP4  -     chr1:153330121-153348841 -  1q21.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PGLYRP4  -     1q21.3   [Description]    (hg19-Feb_2009)
EnsemblPGLYRP4 - 1q21.3 [CytoView hg19]  PGLYRP4 - 1q21.3 [CytoView hg38]
Mapping of homologs : NCBIPGLYRP4 [Mapview hg19]  PGLYRP4 [Mapview hg38]
OMIM608198   
Gene and transcription
Genbank (Entrez)AF086392 AF242518 AK292203 AY035377 BC107157
RefSeq transcript (Entrez)NM_020393
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PGLYRP4
Cluster EST : UnigeneHs.58356 [ NCBI ]
CGAP (NCI)Hs.58356
Alternative Splicing GalleryENSG00000163218
Gene ExpressionPGLYRP4 [ NCBI-GEO ]   PGLYRP4 [ EBI - ARRAY_EXPRESS ]   PGLYRP4 [ SEEK ]   PGLYRP4 [ MEM ]
Gene Expression Viewer (FireBrowse)PGLYRP4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57115
GTEX Portal (Tissue expression)PGLYRP4
Human Protein AtlasENSG00000163218-PGLYRP4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96LB8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96LB8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96LB8
Splice isoforms : SwissVarQ96LB8
PhosPhoSitePlusQ96LB8
Domains : Interpro (EBI)Amidase_domain    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)PGLYRP4
DMDM Disease mutations57115
Blocks (Seattle)PGLYRP4
PDB (SRS)2EAV    2EAX   
PDB (PDBSum)2EAV    2EAX   
PDB (IMB)2EAV    2EAX   
PDB (RSDB)2EAV    2EAX   
Structural Biology KnowledgeBase2EAV    2EAX   
SCOP (Structural Classification of Proteins)2EAV    2EAX   
CATH (Classification of proteins structures)2EAV    2EAX   
SuperfamilyQ96LB8
Human Protein Atlas [tissue]ENSG00000163218-PGLYRP4 [tissue]
Peptide AtlasQ96LB8
HPRD16298
IPIIPI00307125   IPI00479339   
Protein Interaction databases
DIP (DOE-UCLA)Q96LB8
IntAct (EBI)Q96LB8
FunCoupENSG00000163218
BioGRIDPGLYRP4
STRING (EMBL)PGLYRP4
ZODIACPGLYRP4
Ontologies - Pathways
QuickGOQ96LB8
Ontology : AmiGOpattern recognition receptor signaling pathway  extracellular region  intracellular  zinc ion binding  N-acetylmuramoyl-L-alanine amidase activity  peptidoglycan catabolic process  peptidoglycan receptor activity  membrane  detection of bacterium  peptidoglycan binding  innate immune response  defense response to Gram-positive bacterium  
Ontology : EGO-EBIpattern recognition receptor signaling pathway  extracellular region  intracellular  zinc ion binding  N-acetylmuramoyl-L-alanine amidase activity  peptidoglycan catabolic process  peptidoglycan receptor activity  membrane  detection of bacterium  peptidoglycan binding  innate immune response  defense response to Gram-positive bacterium  
NDEx NetworkPGLYRP4
Atlas of Cancer Signalling NetworkPGLYRP4
Wikipedia pathwaysPGLYRP4
Orthology - Evolution
OrthoDB57115
GeneTree (enSembl)ENSG00000163218
Phylogenetic Trees/Animal Genes : TreeFamPGLYRP4
HOVERGENQ96LB8
HOGENOMQ96LB8
Homologs : HomoloGenePGLYRP4
Homology/Alignments : Family Browser (UCSC)PGLYRP4
Gene fusions - Rearrangements
Fusion: Tumor Portal PGLYRP4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPGLYRP4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PGLYRP4
dbVarPGLYRP4
ClinVarPGLYRP4
1000_GenomesPGLYRP4 
Exome Variant ServerPGLYRP4
ExAC (Exome Aggregation Consortium)ENSG00000163218
GNOMAD BrowserENSG00000163218
Genetic variants : HAPMAP57115
Genomic Variants (DGV)PGLYRP4 [DGVbeta]
DECIPHERPGLYRP4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPGLYRP4 
Mutations
ICGC Data PortalPGLYRP4 
TCGA Data PortalPGLYRP4 
Broad Tumor PortalPGLYRP4
OASIS PortalPGLYRP4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPGLYRP4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPGLYRP4
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 PGLYRP4
DgiDB (Drug Gene Interaction Database)PGLYRP4
DoCM (Curated mutations)PGLYRP4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PGLYRP4 (select a term)
intoGenPGLYRP4
Cancer3DPGLYRP4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608198   
Orphanet
MedgenPGLYRP4
Genetic Testing Registry PGLYRP4
NextProtQ96LB8 [Medical]
TSGene57115
GENETestsPGLYRP4
Target ValidationPGLYRP4
Huge Navigator PGLYRP4 [HugePedia]
snp3D : Map Gene to Disease57115
BioCentury BCIQPGLYRP4
ClinGenPGLYRP4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57115
Chemical/Pharm GKB GenePA134902492
Clinical trialPGLYRP4
Miscellaneous
canSAR (ICR)PGLYRP4 (select the gene name)
Probes
Litterature
PubMed11 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePGLYRP4
EVEXPGLYRP4
GoPubMedPGLYRP4
iHOPPGLYRP4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Nov 9 12:22:21 CET 2017

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