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Aliases for PGLYRP1 Gene

Aliases for PGLYRP1 Gene

  • Peptidoglycan Recognition Protein 1 2 3 5
  • TNFSF3L 3 4
  • PGLYRP 3 4
  • PGRP-S 3 4
  • PGRP 3 4
  • TNF Superfamily, Member 3 (LTB)-Like (Peptidoglycan Recognition Protein) 3
  • Peptidoglycan Recognition Protein Short 4
  • Peptidoglycan Recognition Protein 2
  • PGRPS 3
  • TAG7 3

External Ids for PGLYRP1 Gene

Previous HGNC Symbols for PGLYRP1 Gene

  • TNFSF3L
  • PGLYRP

Previous GeneCards Identifiers for PGLYRP1 Gene

  • GC19M051215
  • GC19M051216
  • GC19M046522
  • GC19M042950

Summaries for PGLYRP1 Gene

GeneCards Summary for PGLYRP1 Gene

PGLYRP1 (Peptidoglycan Recognition Protein 1) is a Protein Coding gene. Diseases associated with PGLYRP1 include Trench Fever. Among its related pathways are Defensins and Innate Immune System. 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 PGLYRP1 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.

Gene Wiki entry for PGLYRP1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PGLYRP1 Gene

Genomics for PGLYRP1 Gene

Regulatory Elements for PGLYRP1 Gene

Enhancers for PGLYRP1 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
GH19G045952 1.2 Ensembl ENCODE 11.3 +68.6 68610 4.7 ATF1 ZNF133 ARID4B SIN3A GLI4 ZNF2 ZNF766 GLIS2 CBX5 ZNF143 IGFL4 CCDC61 LOC105372421 PPP5D1 MYPOP MIR769 PGLYRP1 SYMPK FOXA3 HIF3A
GH19G046263 1 ENCODE 11 -239.8 -239801 0.2 FEZF1 ELK1 FOS SP3 YY2 JUNB TSHZ1 TBX21 ZNF585B NBN ZC3H4 IRF2BP1 CCDC61 PPP5D1 NOVA2 HIF3A IGFL4 MIR769 PGLYRP1 PNMA8B
GH19G046065 0.7 ENCODE 11.5 -42.4 -42420 0.2 CTCF STAT1 BDP1 JUN CEBPB DPF2 GATA3 JUND POLR3A STAT3 IRF2BP1 PPP1R37 PGLYRP1 MIR769 HIF3A PIR33092 PIR35316
GH19G046265 0.7 ENCODE 11 -242.1 -242141 0.2 CTCF MAX RAD21 SCRT2 ZNF143 SMC3 ZBTB20 SCRT1 ZNF654 JUNB HIF3A IGFL4 PGLYRP1 MIR769 CCDC61 NOVA2 IGFL1P2
GH19G046021 1 Ensembl ENCODE 0.7 +1.4 1398 1.4 BCOR CTCF KLF1 AGO1 MAX REST ZIC2 ZKSCAN1 ZFHX2 GLIS2 ENSG00000268810 CCDC61 QPCTL ENSG00000259605 PTGIR PGLYRP1 GC19P046021
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PGLYRP1 on UCSC Golden Path with GeneCards custom track

Genomic Location for PGLYRP1 Gene

Chromosome:
19
Start:
46,019,153 bp from pter
End:
46,023,298 bp from pter
Size:
4,146 bases
Orientation:
Minus strand

Genomic View for PGLYRP1 Gene

Genes around PGLYRP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PGLYRP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PGLYRP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PGLYRP1 Gene

Proteins for PGLYRP1 Gene

  • Protein details for PGLYRP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75594-PGRP1_HUMAN
    Recommended name:
    Peptidoglycan recognition protein 1
    Protein Accession:
    O75594
    Secondary Accessions:
    • Q4VB36

    Protein attributes for PGLYRP1 Gene

    Size:
    196 amino acids
    Molecular mass:
    21731 Da
    Quaternary structure:
    • Homodimer; disulfide-linked.

    Three dimensional structures from OCA and Proteopedia for PGLYRP1 Gene

neXtProt entry for PGLYRP1 Gene

Post-translational modifications for PGLYRP1 Gene

  • N-glycosylated. N-glycosylation is required for bactericidal activity.
  • Glycosylation at Asn112
  • Modification sites at PhosphoSitePlus

Other Protein References for PGLYRP1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for PGLYRP1 (PGLYRP1/PGRP-S)
  • Cloud-Clone Corp. Antibodies for PGLYRP1

Protein Products

  • Cloud-Clone Corp. Proteins for PGLYRP1

Assay Products

  • Cloud-Clone Corp Assay Kits for PGLYRP1

No data available for DME Specific Peptides for PGLYRP1 Gene

Domains & Families for PGLYRP1 Gene

Gene Families for PGLYRP1 Gene

Suggested Antigen Peptide Sequences for PGLYRP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75594

UniProtKB/Swiss-Prot:

PGRP1_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 PGLYRP1: view

Function for PGLYRP1 Gene

Molecular function for PGLYRP1 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.

Gene Ontology (GO) - Molecular Function for PGLYRP1 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
genes like me logo Genes that share ontologies with PGLYRP1: view
genes like me logo Genes that share phenotypes with PGLYRP1: view

Animal Models for PGLYRP1 Gene

MGI Knock Outs for PGLYRP1:

Animal Model Products

  • Taconic Biosciences Mouse Models for PGLYRP1

CRISPR Products

miRNA for PGLYRP1 Gene

miRTarBase miRNAs that target PGLYRP1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PGLYRP1 Gene

Localization for PGLYRP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PGLYRP1 Gene

Secreted. Cytoplasmic granule.

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 PGLYRP1 gene
Compartment Confidence
extracellular 5
mitochondrion 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for PGLYRP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0035580 specific granule lumen TAS --
GO:0070062 extracellular exosome IDA 19056867
GO:0097013 phagocytic vesicle lumen TAS --
GO:1904724 tertiary granule lumen TAS --
genes like me logo Genes that share ontologies with PGLYRP1: view

Pathways & Interactions for PGLYRP1 Gene

genes like me logo Genes that share pathways with PGLYRP1: view

Pathways by source for PGLYRP1 Gene

Gene Ontology (GO) - Biological Process for PGLYRP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002221 pattern recognition receptor signaling pathway IEA --
GO:0002376 immune system process IEA --
GO:0006955 immune response TAS 9707603
GO:0009253 peptidoglycan catabolic process IEA --
GO:0016045 detection of bacterium IDA 11461926
genes like me logo Genes that share ontologies with PGLYRP1: view

No data available for SIGNOR curated interactions for PGLYRP1 Gene

Drugs & Compounds for PGLYRP1 Gene

(5) Drugs for PGLYRP1 Gene - From: HMDB and Novoseek

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

(7) Additional Compounds for PGLYRP1 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
N-Acetylmuramate
N-Acetylmuramoyl-Ala
genes like me logo Genes that share compounds with PGLYRP1: view

Transcripts for PGLYRP1 Gene

mRNA/cDNA for PGLYRP1 Gene

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

Unigene Clusters for PGLYRP1 Gene

Peptidoglycan recognition protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PGLYRP1 Gene

No ASD Table

Relevant External Links for PGLYRP1 Gene

GeneLoc Exon Structure for
PGLYRP1
ECgene alternative splicing isoforms for
PGLYRP1

Expression for PGLYRP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PGLYRP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PGLYRP1 Gene

This gene is overexpressed in Whole Blood (x49.2).

Protein differential expression in normal tissues from HIPED for PGLYRP1 Gene

This gene is overexpressed in Urine (28.4), Lavage (22.4), and Neutrophil (9.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PGLYRP1 Gene



Protein tissue co-expression partners for PGLYRP1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PGLYRP1 Gene:

PGLYRP1

SOURCE GeneReport for Unigene cluster for PGLYRP1 Gene:

Hs.137583

mRNA Expression by UniProt/SwissProt for PGLYRP1 Gene:

O75594-PGRP1_HUMAN
Tissue specificity: Highly expressed in bone marrow. Weak expression found in kidney, liver, small intestine, spleen, thymus, peripheral leukocyte, lung, fetal spleen and neutrophils.

Evidence on tissue expression from TISSUES for PGLYRP1 Gene

  • Bone marrow(4.5)
  • Blood(2.2)
genes like me logo Genes that share expression patterns with PGLYRP1: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for PGLYRP1 Gene

Orthologs for PGLYRP1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PGLYRP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PGLYRP1 34 35
  • 97.68 (n)
dog
(Canis familiaris)
Mammalia PGLYRP1 34 35
  • 78.05 (n)
cow
(Bos Taurus)
Mammalia PGLYRP1 34 35
  • 77.58 (n)
mouse
(Mus musculus)
Mammalia Pglyrp1 34 16 35
  • 75.64 (n)
rat
(Rattus norvegicus)
Mammalia Pglyrp1 34
  • 73.44 (n)
oppossum
(Monodelphis domestica)
Mammalia PGLYRP1 35
  • 52 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PGLYRP1 35
  • 32 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii pglyrp5 34 35
  • 47.93 (n)
fruit fly
(Drosophila melanogaster)
Insecta PGRP-SC1a 35
  • 42 (a)
ManyToMany
PGRP-SC1b 35
  • 42 (a)
ManyToMany
PGRP-SC2 35
  • 40 (a)
ManyToMany
PGRP-SA 35
  • 34 (a)
ManyToMany
PGRP-SD 35
  • 34 (a)
ManyToMany
PGRP-SB1 35
  • 33 (a)
ManyToMany
PGRP-SB2 35
  • 27 (a)
ManyToMany
PGRP-LB 35
  • 23 (a)
ManyToMany
Species where no ortholog for PGLYRP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PGLYRP1 Gene

ENSEMBL:
Gene Tree for PGLYRP1 (if available)
TreeFam:
Gene Tree for PGLYRP1 (if available)

Paralogs for PGLYRP1 Gene

Paralogs for PGLYRP1 Gene

(3) SIMAP similar genes for PGLYRP1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with PGLYRP1: view

Variants for PGLYRP1 Gene

Sequence variations from dbSNP and Humsavar for PGLYRP1 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000398772 -- 46,024,133(+) TTTCA(A/G)AAATT intron-variant, upstream-variant-2KB
rs1000516432 -- 46,022,395(+) TCCGC(C/T)TCCTA intron-variant, upstream-variant-2KB
rs1000590038 -- 46,022,536(+) CTCAC(C/G)CATCT intron-variant, upstream-variant-2KB
rs1001189778 -- 46,020,423(+) GACTC(-/TT)ATCAT intron-variant
rs1001232907 -- 46,023,556(+) GAGGT(C/T)GAGAG intron-variant, upstream-variant-2KB

Variation tolerance for PGLYRP1 Gene

Residual Variation Intolerance Score: 69.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.28; 25.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PGLYRP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PGLYRP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for PGLYRP1 Gene

Disorders for PGLYRP1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PGLYRP1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
trench fever
  • his-werner disease
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for PGLYRP1

Genetic Association Database (GAD)
PGLYRP1
Human Genome Epidemiology (HuGE) Navigator
PGLYRP1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PGLYRP1
genes like me logo Genes that share disorders with PGLYRP1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PGLYRP1 Gene

Publications for PGLYRP1 Gene

  1. A peptidoglycan recognition protein in innate immunity conserved from insects to humans. (PMID: 9707603) Kang D. … Steiner H. (Proc. Natl. Acad. Sci. U.S.A. 1998) 2 3 4 22 64
  2. Crystal structure of human peptidoglycan recognition protein S (PGRP- S) at 1.70 A resolution. (PMID: 15769462) Guan R. … Mariuzza R.A. (J. Mol. Biol. 2005) 3 4 22 64
  3. [Expression analysis of proteins encoded by genes of the tag7/tagL (PGRP-S,L) family in human peripheral blood cells]. (PMID: 12669421) Kibardin A.V. … Kiselev S.L. (Genetika 2003) 2 3 22 64
  4. Peptidoglycan recognition proteins: a novel family of four human innate immunity pattern recognition molecules. (PMID: 11461926) Liu C. … Dziarski R. (J. Biol. Chem. 2001) 3 4 22 64
  5. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64

Products for PGLYRP1 Gene

Sources for PGLYRP1 Gene

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