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Aliases for PGLYRP4 Gene

Aliases for PGLYRP4 Gene

  • Peptidoglycan Recognition Protein 4 2 3 5
  • Peptidoglycan Recognition Protein Intermediate Beta 3 4
  • Peptidoglycan Recognition Protein I-Beta 3 4
  • PGLYRPIbeta 3 4
  • PGRP-I-Beta 3 4
  • PGRPIB 3 4
  • Peptidoglycan Recognition Protein I Beta Precursor 2
  • PGRP-Ibeta 3
  • SBBI67 3

External Ids for PGLYRP4 Gene

Previous GeneCards Identifiers for PGLYRP4 Gene

  • GC01M150521
  • GC01M150116
  • GC01M151570
  • GC01M124666

Summaries for PGLYRP4 Gene

Entrez Gene Summary for PGLYRP4 Gene

  • Summary: This gene encodes a peptidoglycan recognition protein, which belongs to the N-acetylmuramoyl-L-alanine amidase 2 family. These proteins are part of the innate immune system and recognize peptidoglycan, a ubiquitous component of bacterial cell walls. This antimicrobial protein binds to murein peptidoglycans of Gram-positive bacteria. [provided by RefSeq, Oct 2014]

GeneCards Summary for PGLYRP4 Gene

PGLYRP4 (Peptidoglycan Recognition Protein 4) is a Protein Coding gene. Among its related pathways are Innate Immune System and Defensins. GO annotations related to this gene include peptidoglycan binding and N-acetylmuramoyl-L-alanine amidase activity. An important paralog of this gene is PGLYRP3.

UniProtKB/Swiss-Prot for PGLYRP4 Gene

  • Pattern receptor that binds to murein peptidoglycans (PGN) of Gram-positive bacteria. Has bactericidal activity towards Gram-positive bacteria. May kill Gram-positive bacteria by interfering with peptidoglycan biosynthesis. Binds also to Gram-negative bacteria, and has bacteriostatic activity towards Gram-negative bacteria. Plays a role in innate immunity.

Additional gene information for PGLYRP4 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PGLYRP4 Gene

Genomics for PGLYRP4 Gene

Regulatory Elements for PGLYRP4 Gene

Enhancers for PGLYRP4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H153344 1 ENCODE 48.9 +4.9 4895 2 HDGF PKNOX1 ATF1 ARNT TCF12 ZNF766 GATA2 ELK1 ATF7 CAVIN1 PGLYRP4 RNU6-160P
GH01H153343 0.9 ENCODE 50.1 +6.5 6472 0 HDAC1 TBL1XR1 TCF12 GATA2 SIRT6 SMARCA5 ZEB2 MEF2D NFIC MTA1 PGLYRP4 RNU6-160P
GH01H153342 0.6 ENCODE 48.7 +6.1 6082 0 SMARCA5 FOSL1 HMBOX1 NR2C1 MNT ZEB2 NR2C2 PGLYRP4 RNU6-160P
GH01H153561 2 FANTOM5 Ensembl ENCODE dbSUPER 9.4 -216.7 -216721 8 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF207 ZNF143 S100A6 S100A3 S100A5 ENSG00000238279 S100A16 S100A13 S100A14 SNAPIN S100A1 CHTOP
GH01H153489 1.5 Ensembl ENCODE dbSUPER 11.2 -142.0 -141987 2 SIN3A FEZF1 ZNF2 FOS DEK SP3 REST TSHZ1 ZNF623 ZNF518A PGLYRP4 S100A9 RNU6-160P S100A1 S100A13 CHTOP PGLYRP3 RN7SL44P S100A3 GC01M153500
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PGLYRP4 on UCSC Golden Path with GeneCards custom track

Genomic Location for PGLYRP4 Gene

Chromosome:
1
Start:
153,327,380 bp from pter
End:
153,348,841 bp from pter
Size:
21,462 bases
Orientation:
Minus strand

Genomic View for PGLYRP4 Gene

Genes around PGLYRP4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PGLYRP4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PGLYRP4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PGLYRP4 Gene

Proteins for PGLYRP4 Gene

  • Protein details for PGLYRP4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96LB8-PGRP4_HUMAN
    Recommended name:
    Peptidoglycan recognition protein 4
    Protein Accession:
    Q96LB8
    Secondary Accessions:
    • A8K838
    • Q3B822
    • Q3B823
    • Q5SY63
    • Q5SY64
    • Q9HD75

    Protein attributes for PGLYRP4 Gene

    Size:
    373 amino acids
    Molecular mass:
    40620 Da
    Quaternary structure:
    • Homodimer; disulfide-linked. Heterodimer with PGLYRP3; disulfide-linked.
    SequenceCaution:
    • Sequence=AAF99599.1; Type=Frameshift; Positions=209, 224, 227; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PGLYRP4 Gene

    Alternative splice isoforms for PGLYRP4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PGLYRP4 Gene

Post-translational modifications for PGLYRP4 Gene

  • N-glycosylated.
  • Glycosylation at posLast=2222, posLast=3939, Asn109, posLast=145145, and posLast=247247
  • Modification sites at PhosphoSitePlus

Other Protein References for PGLYRP4 Gene

No data available for DME Specific Peptides for PGLYRP4 Gene

Domains & Families for PGLYRP4 Gene

Gene Families for PGLYRP4 Gene

Protein Domains for PGLYRP4 Gene

Suggested Antigen Peptide Sequences for PGLYRP4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96LB8

UniProtKB/Swiss-Prot:

PGRP4_HUMAN :
  • Belongs to the N-acetylmuramoyl-L-alanine amidase 2 family.
Family:
  • Belongs to the N-acetylmuramoyl-L-alanine amidase 2 family.
genes like me logo Genes that share domains with PGLYRP4: view

Function for PGLYRP4 Gene

Molecular function for PGLYRP4 Gene

UniProtKB/Swiss-Prot Function:
Pattern receptor that binds to murein peptidoglycans (PGN) of Gram-positive bacteria. Has bactericidal activity towards Gram-positive bacteria. May kill Gram-positive bacteria by interfering with peptidoglycan biosynthesis. Binds also to Gram-negative bacteria, and has bacteriostatic activity towards Gram-negative bacteria. Plays a role in innate immunity.
UniProtKB/Swiss-Prot Induction:
Up-regulated by exposure to Gram-positive and Gram-negative bacteria.

Gene Ontology (GO) - Molecular Function for PGLYRP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008270 zinc ion binding IEA --
GO:0008745 N-acetylmuramoyl-L-alanine amidase activity IEA --
GO:0016019 peptidoglycan receptor activity IDA 11461926
GO:0042834 peptidoglycan binding IDA 11461926
GO:0046982 protein heterodimerization activity IPI 16354652
genes like me logo Genes that share ontologies with PGLYRP4: view
genes like me logo Genes that share phenotypes with PGLYRP4: view

Animal Models for PGLYRP4 Gene

MGI Knock Outs for PGLYRP4:

Animal Model Products

  • Taconic Biosciences Mouse Models for PGLYRP4

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PGLYRP4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for PGLYRP4 Gene

Localization for PGLYRP4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PGLYRP4 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PGLYRP4 gene
Compartment Confidence
extracellular 4
mitochondrion 1
peroxisome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PGLYRP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005622 intracellular NAS 11461926
GO:0016020 membrane NAS 11461926
GO:0043234 protein complex IDA 16354652
genes like me logo Genes that share ontologies with PGLYRP4: view

Pathways & Interactions for PGLYRP4 Gene

genes like me logo Genes that share pathways with PGLYRP4: view

Pathways by source for PGLYRP4 Gene

3 Reactome pathways for PGLYRP4 Gene

Interacting Proteins for PGLYRP4 Gene

Selected Interacting proteins: Q96LB8-PGRP4_HUMAN for PGLYRP4 Gene via IID

Gene Ontology (GO) - Biological Process for PGLYRP4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002221 pattern recognition receptor signaling pathway IEA --
GO:0002376 immune system process IEA --
GO:0009253 peptidoglycan catabolic process IEA --
GO:0016045 detection of bacterium IDA 11461926
GO:0031640 killing of cells of other organism IDA 16354652
genes like me logo Genes that share ontologies with PGLYRP4: view

No data available for SIGNOR curated interactions for PGLYRP4 Gene

Drugs & Compounds for PGLYRP4 Gene

(3) Drugs for PGLYRP4 Gene - From: PharmGKB and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Water Approved Pharma 0
L-Alanine Approved Nutra Full agonist, Agonist Glycine receptor agonist 0
Tumor necrosis factor alpha (TNF-alpha) inhibitors Pharma 0

(2) Additional Compounds for PGLYRP4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
N-Acetylmuramate
N-Acetylmuramoyl-Ala
genes like me logo Genes that share compounds with PGLYRP4: view

Transcripts for PGLYRP4 Gene

mRNA/cDNA for PGLYRP4 Gene

(6) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(12) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PGLYRP4 Gene

Peptidoglycan recognition protein 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PGLYRP4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for PGLYRP4 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b
SP1: -
SP2:
SP3:

Relevant External Links for PGLYRP4 Gene

GeneLoc Exon Structure for
PGLYRP4
ECgene alternative splicing isoforms for
PGLYRP4

Expression for PGLYRP4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PGLYRP4 Gene

mRNA differential expression in normal tissues according to GTEx for PGLYRP4 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x12.3), Skin - Sun Exposed (Lower leg) (x11.3), Cervix - Ectocervix (x9.0), Vagina (x9.0), and Esophagus - Mucosa (x8.5).

Protein differential expression in normal tissues from HIPED for PGLYRP4 Gene

This gene is overexpressed in Fetal Liver (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PGLYRP4 Gene



Protein tissue co-expression partners for PGLYRP4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PGLYRP4 Gene:

PGLYRP4

SOURCE GeneReport for Unigene cluster for PGLYRP4 Gene:

Hs.58356

mRNA Expression by UniProt/SwissProt for PGLYRP4 Gene:

Q96LB8-PGRP4_HUMAN
Tissue specificity: Detected in skin epidermis, eccrine sweat glands and ducts, mucous cells in the submandibular salivary gland, mucous cells in the throat, ciliary body epithelial cells of the eye, small intestine, colon, stomach and in mature epithelial cells of the tongue (at protein level). High expression in skin and esophagus. Expressed also to a much lesser extent in the tonsils and thymus.
genes like me logo Genes that share expression patterns with PGLYRP4: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PGLYRP4 Gene

Orthologs for PGLYRP4 Gene

This gene was present in the common ancestor of animals.

Orthologs for PGLYRP4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PGLYRP4 33 34
  • 99.11 (n)
cow
(Bos Taurus)
Mammalia PGLYRP4 33
  • 81 (n)
mouse
(Mus musculus)
Mammalia Pglyrp4 33 16 34
  • 79.03 (n)
rat
(Rattus norvegicus)
Mammalia Pglyrp4 33
  • 78.23 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 62 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 46 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia pglyrp1 33
  • 51.39 (n)
zebrafish
(Danio rerio)
Actinopterygii pglyrp5 34
  • 26 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta PGRPS2 33
  • 57.67 (n)
fruit fly
(Drosophila melanogaster)
Insecta PGRP-SC2 33 34
  • 51.25 (n)
PGRP-SB1 34
  • 39 (a)
ManyToMany
PGRP-SA 34
  • 33 (a)
ManyToMany
PGRP-SC1a 34
  • 33 (a)
ManyToMany
PGRP-SC1b 34
  • 33 (a)
ManyToMany
PGRP-SD 34
  • 32 (a)
ManyToMany
PGRP-SB2 34
  • 29 (a)
ManyToMany
PGRP-LB 34
  • 28 (a)
ManyToMany
PGRP-LC 34
  • 6 (a)
ManyToMany
Species where no ortholog for PGLYRP4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PGLYRP4 Gene

ENSEMBL:
Gene Tree for PGLYRP4 (if available)
TreeFam:
Gene Tree for PGLYRP4 (if available)

Paralogs for PGLYRP4 Gene

Paralogs for PGLYRP4 Gene

(2) SIMAP similar genes for PGLYRP4 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with PGLYRP4: view

Variants for PGLYRP4 Gene

Sequence variations from dbSNP and Humsavar for PGLYRP4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000143200 -- 153,332,762(+) TTAAA(A/C)AACCT intron-variant
rs1000242168 -- 153,344,708(+) ATGTG(A/T)GTGGT intron-variant, upstream-variant-2KB
rs1000270620 -- 153,327,115(+) AGGGC(A/G)GGGCA downstream-variant-500B
rs1000293107 -- 153,344,996(+) ACCTC(A/G)CAGAA intron-variant, upstream-variant-2KB
rs1000492769 -- 153,333,007(+) ACTAG(C/T)AGAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PGLYRP4 Gene

Variant ID Type Subtype PubMed ID
esv6733 CNV loss 19470904
nsv1002705 CNV gain 25217958
nsv525937 CNV gain 19592680
nsv7184 OTHER inversion 18451855
nsv999024 CNV loss 25217958

Variation tolerance for PGLYRP4 Gene

Residual Variation Intolerance Score: 83.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.06; 60.71% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PGLYRP4 Gene

Human Gene Mutation Database (HGMD)
PGLYRP4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PGLYRP4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PGLYRP4 Gene

Disorders for PGLYRP4 Gene

Relevant External Links for PGLYRP4

Genetic Association Database (GAD)
PGLYRP4
Human Genome Epidemiology (HuGE) Navigator
PGLYRP4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PGLYRP4

No disorders were found for PGLYRP4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PGLYRP4 Gene

Publications for PGLYRP4 Gene

  1. Peptidoglycan recognition proteins: a novel family of four human innate immunity pattern recognition molecules. (PMID: 11461926) Liu C … Dziarski R (The Journal of biological chemistry 2001) 2 3 4 60
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 45 60
  3. Structural insights into the bactericidal mechanism of human peptidoglycan recognition proteins. (PMID: 17502600) Cho S … Mariuzza RA (Proceedings of the National Academy of Sciences of the United States of America 2007) 3 4 60
  4. Peptidoglycan recognition proteins are a new class of human bactericidal proteins. (PMID: 16354652) Lu X … Dziarski R (The Journal of biological chemistry 2006) 3 4 60
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60

Products for PGLYRP4 Gene

Sources for PGLYRP4 Gene

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