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Protein

Peptidoglycan recognition protein 4

Gene

PGLYRP4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei263Murein1
Binding sitei274Murein1

GO - Molecular functioni

  • N-acetylmuramoyl-L-alanine amidase activity Source: InterPro
  • peptidoglycan binding Source: UniProtKB
  • peptidoglycan receptor activity Source: UniProtKB
  • protein heterodimerization activity Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • antimicrobial humoral immune response mediated by antimicrobial peptide Source: UniProtKB
  • defense response to Gram-positive bacterium Source: UniProtKB
  • detection of bacterium Source: UniProtKB
  • innate immune response Source: UniProtKB
  • killing of cells of other organism Source: UniProtKB
  • peptidoglycan catabolic process Source: InterPro
  • positive regulation of cytolysis in other organism Source: UniProtKB

Keywordsi

Molecular functionAntibiotic, Antimicrobial
Biological processImmunity, Innate immunity

Enzyme and pathway databases

ReactomeiR-HSA-6803157 Antimicrobial peptides

Names & Taxonomyi

Protein namesi
Recommended name:
Peptidoglycan recognition protein 4
Alternative name(s):
Peptidoglycan recognition protein I-beta
Short name:
PGLYRPIbeta
Short name:
PGRP-I-beta
Peptidoglycan recognition protein intermediate beta
Gene namesi
Name:PGLYRP4
Synonyms:PGRPIB
ORF Names:SBBI67
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000163218.14
HGNCiHGNC:30015 PGLYRP4
MIMi608198 gene
neXtProtiNX_Q96LB8

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi57115
OpenTargetsiENSG00000163218
PharmGKBiPA134902492

Polymorphism and mutation databases

BioMutaiPGLYRP4
DMDMi143811439

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 17Sequence analysisAdd BLAST17
ChainiPRO_000002392418 – 373Peptidoglycan recognition protein 4Add BLAST356

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi22N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi39N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi109N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi145N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi210 ↔ 3321 Publication
Disulfide bondi226 ↔ 2701 Publication
Disulfide bondi246 ↔ 2521 Publication
Glycosylationi247N-linked (GlcNAc...) asparagineSequence analysis1

Post-translational modificationi

N-glycosylated.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ96LB8
PeptideAtlasiQ96LB8
PRIDEiQ96LB8

PTM databases

iPTMnetiQ96LB8
PhosphoSitePlusiQ96LB8

Expressioni

Tissue specificityi

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.2 Publications

Inductioni

Up-regulated by exposure to Gram-positive and Gram-negative bacteria.1 Publication

Gene expression databases

BgeeiENSG00000163218
CleanExiHS_PGLYRP4
GenevisibleiQ96LB8 HS

Organism-specific databases

HPAiCAB025879

Interactioni

Subunit structurei

Homodimer; disulfide-linked. Heterodimer with PGLYRP3; disulfide-linked.2 Publications

GO - Molecular functioni

  • protein heterodimerization activity Source: UniProtKB

Protein-protein interaction databases

STRINGi9606.ENSP00000352672

Structurei

Secondary structure

1373
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi212 – 214Combined sources3
Helixi216 – 219Combined sources4
Beta strandi231 – 240Combined sources10
Helixi249 – 265Combined sources17
Beta strandi275 – 278Combined sources4
Beta strandi284 – 288Combined sources5
Beta strandi290 – 292Combined sources3
Turni298 – 300Combined sources3
Helixi301 – 303Combined sources3
Beta strandi304 – 311Combined sources8
Beta strandi314 – 316Combined sources3
Helixi320 – 335Combined sources16
Beta strandi338 – 347Combined sources10
Helixi348 – 351Combined sources4
Beta strandi352 – 354Combined sources3
Helixi359 – 365Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EAVX-ray2.20A/B209-373[»]
2EAXX-ray2.10A/B/C209-373[»]
ProteinModelPortaliQ96LB8
SMRiQ96LB8
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ96LB8

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni293 – 302Interaction with murein10
Regioni353 – 354Interaction with murein2

Sequence similaritiesi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410IYTD Eukaryota
ENOG4111PQD LUCA
GeneTreeiENSGT00390000016833
HOVERGENiHBG053579
InParanoidiQ96LB8
KOiK01446
OMAiHTAGRTC
OrthoDBiEOG091G0O6Z
PhylomeDBiQ96LB8
TreeFamiTF323898

Family and domain databases

CDDicd06583 PGRP, 2 hits
Gene3Di3.40.80.10, 2 hits
InterProiView protein in InterPro
IPR036505 Amidase/PGRP_sf
IPR002502 Amidase_domain
IPR015510 PGRP
IPR006619 PGRP_domain_met/bac
PANTHERiPTHR11022 PTHR11022, 1 hit
PfamiView protein in Pfam
PF01510 Amidase_2, 2 hits
SMARTiView protein in SMART
SM00644 Ami_2, 2 hits
SM00701 PGRP, 2 hits
SUPFAMiSSF55846 SSF55846, 2 hits

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q96LB8-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MLPWLLVFSA LGIQAWGDSS WNKTQAKQVS EGLQYLFENI SQLTEKGLPT
60 70 80 90 100
DVSTTVSRKA WGAEAVGCSI QLTTPVNVLV IHHVPGLECH DQTVCSQRLR
110 120 130 140 150
ELQAHHVHNN SGCDVAYNFL VGDDGRVYEG VGWNIQGVHT QGYNNISLGF
160 170 180 190 200
AFFGTKKGHS PSPAALSAME NLITYAVQKG HLSSSYVQPL LGKGENCLAP
210 220 230 240 250
RQKTSLKKAC PGVVPRSVWG ARETHCPRMT LPAKYGIIIH TAGRTCNISD
260 270 280 290 300
ECRLLVRDIQ SFYIDRLKSC DIGYNFLVGQ DGAIYEGVGW NVQGSSTPGY
310 320 330 340 350
DDIALGITFM GTFTGIPPNA AALEAAQDLI QCAMVKGYLT PNYLLVGHSD
360 370
VARTLSPGQA LYNIISTWPH FKH
Length:373
Mass (Da):40,620
Last modified:April 3, 2007 - v2
Checksum:i8E882E1FF608F6F3
GO
Isoform 2 (identifier: Q96LB8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     47-50: Missing.

Show »
Length:369
Mass (Da):40,252
Checksum:i1D03920B70BDE735
GO

Sequence cautioni

The sequence AAF99599 differs from that shown. Reason: Frameshift at positions 209, 224 and 227.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_0505033P → L2 PublicationsCorresponds to variant dbSNP:rs12096209Ensembl.1
Natural variantiVAR_03328313I → L3 PublicationsCorresponds to variant dbSNP:rs3006458Ensembl.1
Natural variantiVAR_03158692Q → R. Corresponds to variant dbSNP:rs3006453Ensembl.1
Natural variantiVAR_031587192G → V3 PublicationsCorresponds to variant dbSNP:rs3006448Ensembl.1
Natural variantiVAR_031588213V → I2 PublicationsCorresponds to variant dbSNP:rs12063091Ensembl.1
Natural variantiVAR_031589301D → N. Corresponds to variant dbSNP:rs35347202Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_02438847 – 50Missing in isoform 2. 1 Publication4

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY035377 mRNA Translation: AAK72485.1
AF242518 mRNA Translation: AAF99599.1 Frameshift.
AK292203 mRNA Translation: BAF84892.1
AL591704 Genomic DNA No translation available.
BC142636 mRNA Translation: AAI42637.1
BC107157 mRNA Translation: AAI07158.1
BC107158 mRNA Translation: AAI07159.1
CCDSiCCDS30871.1 [Q96LB8-1]
RefSeqiNP_065126.2, NM_020393.3 [Q96LB8-1]
XP_011508091.1, XM_011509789.2 [Q96LB8-1]
XP_011508092.1, XM_011509790.1 [Q96LB8-1]
XP_011508093.1, XM_011509791.2 [Q96LB8-2]
UniGeneiHs.58356

Genome annotation databases

EnsembliENST00000359650; ENSP00000352672; ENSG00000163218 [Q96LB8-1]
ENST00000368739; ENSP00000357728; ENSG00000163218 [Q96LB8-2]
GeneIDi57115
KEGGihsa:57115
UCSCiuc001fbo.4 human [Q96LB8-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiPGRP4_HUMAN
AccessioniPrimary (citable) accession number: Q96LB8
Secondary accession number(s): A8K838
, Q3B822, Q3B823, Q5SY63, Q5SY64, Q9HD75
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 28, 2003
Last sequence update: April 3, 2007
Last modified: April 25, 2018
This is version 138 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

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