Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Peptidoglycan recognition protein 4

Gene

PGLYRP4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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
  • zinc ion binding Source: InterPro

GO - Biological processi

  • defense response to Gram-positive bacterium Source: UniProtKB
  • detection of bacterium Source: UniProtKB
  • innate immune response Source: UniProtKB
  • peptidoglycan catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Antibiotic, Antimicrobial

Keywords - Biological processi

Immunity, Innate immunity

Enzyme and pathway databases

BioCyciZFISH:ENSG00000163218-MONOMER.
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

HGNCiHGNC:30015. PGLYRP4.

Subcellular locationi

GO - Cellular componenti

  • extracellular region Source: UniProtKB-SubCell
  • intracellular Source: UniProtKB
  • membrane Source: UniProtKB
Complete GO annotation...

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...)Sequence analysis1
Glycosylationi39N-linked (GlcNAc...)Sequence analysis1
Glycosylationi109N-linked (GlcNAc...)Sequence analysis1
Glycosylationi145N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi210 ↔ 3321 Publication
Disulfide bondi226 ↔ 2701 Publication
Disulfide bondi246 ↔ 2521 Publication
Glycosylationi247N-linked (GlcNAc...)Sequence analysis1

Post-translational modificationi

N-glycosylated.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ96LB8.
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

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
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/B214-373[»]
2EAXX-ray2.10A/B/C214-373[»]
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.
OMAiVPGLECH.
OrthoDBiEOG091G0O6Z.
PhylomeDBiQ96LB8.
TreeFamiTF323898.

Family and domain databases

CDDicd06583. PGRP. 2 hits.
Gene3Di3.40.80.10. 2 hits.
InterProiIPR002502. Amidase_domain.
IPR015510. PGRP.
IPR006619. PGRP_domain_met/bac.
[Graphical view]
PANTHERiPTHR11022. PTHR11022. 1 hit.
PfamiPF01510. Amidase_2. 2 hits.
[Graphical view]
SMARTiSM00644. Ami_2. 2 hits.
SM00701. PGRP. 2 hits.
[Graphical view]
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 → L.2 PublicationsCorresponds to variant rs12096209dbSNPEnsembl.1
Natural variantiVAR_03328313I → L.3 PublicationsCorresponds to variant rs3006458dbSNPEnsembl.1
Natural variantiVAR_03158692Q → R.Corresponds to variant rs3006453dbSNPEnsembl.1
Natural variantiVAR_031587192G → V.3 PublicationsCorresponds to variant rs3006448dbSNPEnsembl.1
Natural variantiVAR_031588213V → I.2 PublicationsCorresponds to variant rs12063091dbSNPEnsembl.1
Natural variantiVAR_031589301D → N.Corresponds to variant rs35347202dbSNPEnsembl.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. Translation: CAI19492.1.
AL591704 Genomic DNA. Translation: CAI19493.1.
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

Cross-referencesi

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. Translation: CAI19492.1.
AL591704 Genomic DNA. Translation: CAI19493.1.
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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EAVX-ray2.20A/B214-373[»]
2EAXX-ray2.10A/B/C214-373[»]
ProteinModelPortaliQ96LB8.
SMRiQ96LB8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9606.ENSP00000352672.

PTM databases

iPTMnetiQ96LB8.
PhosphoSitePlusiQ96LB8.

Polymorphism and mutation databases

BioMutaiPGLYRP4.
DMDMi143811439.

Proteomic databases

PaxDbiQ96LB8.
PRIDEiQ96LB8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi57115.
DisGeNETi57115.
GeneCardsiPGLYRP4.
H-InvDBHIX0028539.
HGNCiHGNC:30015. PGLYRP4.
HPAiCAB025879.
MIMi608198. gene.
neXtProtiNX_Q96LB8.
OpenTargetsiENSG00000163218.
PharmGKBiPA134902492.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IYTD. Eukaryota.
ENOG4111PQD. LUCA.
GeneTreeiENSGT00390000016833.
HOVERGENiHBG053579.
InParanoidiQ96LB8.
KOiK01446.
OMAiVPGLECH.
OrthoDBiEOG091G0O6Z.
PhylomeDBiQ96LB8.
TreeFamiTF323898.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000163218-MONOMER.
ReactomeiR-HSA-6803157. Antimicrobial peptides.

Miscellaneous databases

EvolutionaryTraceiQ96LB8.
GenomeRNAii57115.
PROiQ96LB8.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000163218.
CleanExiHS_PGLYRP4.
GenevisibleiQ96LB8. HS.

Family and domain databases

CDDicd06583. PGRP. 2 hits.
Gene3Di3.40.80.10. 2 hits.
InterProiIPR002502. Amidase_domain.
IPR015510. PGRP.
IPR006619. PGRP_domain_met/bac.
[Graphical view]
PANTHERiPTHR11022. PTHR11022. 1 hit.
PfamiPF01510. Amidase_2. 2 hits.
[Graphical view]
SMARTiSM00644. Ami_2. 2 hits.
SM00701. PGRP. 2 hits.
[Graphical view]
SUPFAMiSSF55846. SSF55846. 2 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiPGRP4_HUMAN
AccessioniPrimary (citable) accession number: Q96LB8
Secondary accession number(s): A8K838
, Q3B822, Q3B823, Q5SY63, Q5SY64, Q9HD75
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2003
Last sequence update: April 3, 2007
Last modified: November 30, 2016
This is version 128 of the entry and version 2 of the sequence. [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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.