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Q96PD5 (PGRP2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 119. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
N-acetylmuramoyl-L-alanine amidase

EC=3.5.1.28
Alternative name(s):
Peptidoglycan recognition protein 2
Peptidoglycan recognition protein long
Short name=PGRP-L
Gene names
Name:PGLYRP2
Synonyms:PGLYRPL, PGRPL
ORF Names:UNQ3103/PRO10102
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length576 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May play a scavenger role by digesting biologically active peptidoglycan (PGN) into biologically inactive fragments. Has no direct bacteriolytic activity. Ref.10

Catalytic activity

Hydrolyzes the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides.

Cofactor

Zinc By similarity.

Subcellular location

Secreted. Membrane.

Tissue specificity

Strongly expressed in liver and fetal liver, and secreted into serum. Expressed to a much lesser extent in transverse colon, lymph nodes, heart, thymus, pancreas, descending colon, stomach and testis. Isoform 2 is not detected in the liver or serum. Ref.1 Ref.9

Sequence similarities

Belongs to the N-acetylmuramoyl-L-alanine amidase 2 family.

Ontologies

Keywords
   Biological processImmunity
   Cellular componentMembrane
Secreted
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainSignal
   LigandMetal-binding
Zinc
   Molecular functionHydrolase
   PTMDisulfide bond
Glycoprotein
Phosphoprotein
   Technical termComplete proteome
Direct protein sequencing
Reference proteome
Gene Ontology (GO)
   Biological_processdefense response to Gram-positive bacterium

Inferred from direct assay Ref.1. Source: UniProtKB

detection of bacterium

Inferred from direct assay Ref.1. Source: UniProtKB

growth of symbiont in host

Inferred from electronic annotation. Source: Ensembl

innate immune response

Non-traceable author statement Ref.1. Source: UniProtKB

negative regulation of interferon-gamma production

Inferred from electronic annotation. Source: Ensembl

negative regulation of natural killer cell differentiation involved in immune response

Inferred from electronic annotation. Source: Ensembl

pattern recognition receptor signaling pathway

Inferred from direct assay Ref.1. Source: GOC

peptide amidation

Non-traceable author statement Ref.7. Source: UniProtKB

peptidoglycan catabolic process

Inferred from electronic annotation. Source: InterPro

   Cellular_componentextracellular region

Inferred from electronic annotation. Source: UniProtKB-SubCell

intracellular

Non-traceable author statement Ref.1. Source: UniProtKB

membrane

Non-traceable author statement Ref.1. Source: UniProtKB

   Molecular_functionN-acetylmuramoyl-L-alanine amidase activity

Traceable author statement Ref.7. Source: UniProtKB

peptidoglycan binding

Inferred from direct assay Ref.1. Source: UniProtKB

peptidoglycan receptor activity

Inferred from direct assay Ref.1. Source: UniProtKB

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q96PD5-1)

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.
Note: Major isoform.
Isoform 2 (identifier: Q96PD5-2)

The sequence of this isoform differs from the canonical sequence as follows:
     548-576: TVKPRPARSVSKRSRREPPPRTLPATDLQ → VSLRSLHYTA...TQPACPFPSS
Note: May be due to an intron retention. No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2121 Ref.7 Ref.8
Chain22 – 576555N-acetylmuramoyl-L-alanine amidase
PRO_0000023920

Sites

Metal binding4111Zinc By similarity
Metal binding4471Zinc By similarity
Metal binding5221Zinc By similarity
Metal binding5301Zinc By similarity

Amino acid modifications

Modified residue2391Phosphoserine Ref.9
Modified residue2741Deamidated asparagine Ref.9
Modified residue3221Deamidated asparagine Ref.9
Glycosylation771N-linked (GlcNAc...) Ref.12
Glycosylation3671N-linked (GlcNAc...) Ref.12 Ref.13
Glycosylation4851N-linked (GlcNAc...) Ref.11 Ref.12 Ref.13
Disulfide bond419 ↔ 425 Ref.9

Natural variations

Alternative sequence548 – 57629TVKPR…ATDLQ → VSLRSLHYTARRPSVYTSST RPLPPACNSCARTASARPPT SRRHVYSGNLGPAFAGHSAG NIPDPVTSAYAASAQPQTQP ACPFPSS in isoform 2.
VSP_008964
Natural variant461T → A. Ref.3
Corresponds to variant rs3813135 [ dbSNP | Ensembl ].
VAR_050498
Natural variant991R → Q. Ref.3
Corresponds to variant rs733731 [ dbSNP | Ensembl ].
VAR_050499
Natural variant2571T → N.
Corresponds to variant rs28404490 [ dbSNP | Ensembl ].
VAR_050500
Natural variant2701M → K. Ref.3
Corresponds to variant rs892145 [ dbSNP | Ensembl ].
VAR_050501
Natural variant3941R → Q. Ref.2 Ref.3
Corresponds to variant rs34440547 [ dbSNP | Ensembl ].
VAR_055231
Natural variant4761R → W.
Corresponds to variant rs2304200 [ dbSNP | Ensembl ].
VAR_050502

Experimental info

Mutagenesis4111H → A: No effect on amidase activity. Ref.10
Mutagenesis4191C → A: Abolishes amidase activity. Ref.10
Mutagenesis4361H → A: No effect on amidase activity. Ref.10
Mutagenesis4421W → A: Reduced amidase activity. Ref.10
Mutagenesis4471Y → A: Abolishes amidase activity.
Mutagenesis5301C → S: Abolishes amidase activity. Ref.10
Sequence conflict4481S → G in BAB71034. Ref.4

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified December 1, 2001. Version 1.
Checksum: 73EA8713DC54F85A

FASTA57662,217
        10         20         30         40         50         60 
MAQGVLWILL GLLLWSDPGT ASLPLLMDSV IQALAELEQK VPAAKTRHTA SAWLMSAPNS 

        70         80         90        100        110        120 
GPHNRLYHFL LGAWSLNATE LDPCPLSPEL LGLTKEVARH DVREGKEYGV VLAPDGSTVA 

       130        140        150        160        170        180 
VEPLLAGLEA GLQGRRVINL PLDSMAAPWE TGDTFPDVVA IAPDVRATSS PGLRDGSPDV 

       190        200        210        220        230        240 
TTADIGANTP DATKGCPDVQ ASLPDAKAKS PPTMVDSLLA VTLAGNLGLT FLRGSQTQSH 

       250        260        270        280        290        300 
PDLGTEGCWD QLSAPRTFTL LDPKASLLTM AFLNGALDGV ILGDYLSRTP EPRPSLSHLL 

       310        320        330        340        350        360 
SQYYGAGVAR DPGFRSNFRR QNGAALTSAS ILAQQVWGTL VLLQRLEPVH LQLQCMSQEQ 

       370        380        390        400        410        420 
LAQVAANATK EFTEAFLGCP AIHPRCRWGA APYRGRPKLL QLPLGFLYVH HTYVPAPPCT 

       430        440        450        460        470        480 
DFTRCAANMR SMQRYHQDTQ GWGDIGYSFV VGSDGYVYEG RGWHWVGAHT LGHNSRGFGV 

       490        500        510        520        530        540 
AIVGNYTAAL PTEAALRTVR DTLPSCAVRA GLLRPDYALL GHRQLVRTDC PGDALFDLLR 

       550        560        570 
TWPHFTATVK PRPARSVSKR SRREPPPRTL PATDLQ 

« Hide

Isoform 2 [UniParc].

Checksum: 93FFCAFB353E47A4
Show »

FASTA63468,000

References

« Hide 'large scale' references
[1]"Peptidoglycan recognition proteins: a novel family of four human innate immunity pattern recognition molecules."
Liu C., Xu Z., Gupta D., Dziarski R.
J. Biol. Chem. 276:34686-34694(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
[2]"Expression profiling and differential screening between hepatoblastomas and the corresponding normal livers: identification of high expression of the PLK1 oncogene as a poor-prognostic indicator of hepatoblastomas."
Yamada S., Ohira M., Horie H., Ando K., Takayasu H., Suzuki Y., Sugano S., Hirata T., Goto T., Matsunaga T., Hiyama E., Hayashi Y., Ando H., Suita S., Kaneko M., Sasaki F., Hashizume K., Ohnuma N., Nakagawara A.
Oncogene 23:5901-5911(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT GLN-394.
[3]"The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment."
Clark H.F., Gurney A.L., Abaya E., Baker K., Baldwin D.T., Brush J., Chen J., Chow B., Chui C., Crowley C., Currell B., Deuel B., Dowd P., Eaton D., Foster J.S., Grimaldi C., Gu Q., Hass P.E. expand/collapse author list , Heldens S., Huang A., Kim H.S., Klimowski L., Jin Y., Johnson S., Lee J., Lewis L., Liao D., Mark M.R., Robbie E., Sanchez C., Schoenfeld J., Seshagiri S., Simmons L., Singh J., Smith V., Stinson J., Vagts A., Vandlen R.L., Watanabe C., Wieand D., Woods K., Xie M.-H., Yansura D.G., Yi S., Yu G., Yuan J., Zhang M., Zhang Z., Goddard A.D., Wood W.I., Godowski P.J., Gray A.M.
Genome Res. 13:2265-2270(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANTS ALA-46; GLN-99; LYS-270 AND GLN-394.
[4]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
Tissue: Liver and Testis.
[5]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
[7]"Characterization of human serum N-acetylmuramyl-L-alanine amidase purified by affinity chromatography."
De Pauw P., Neyt C., Vanderwinkel E., Wattiez R., Falmagne P.
Protein Expr. Purif. 6:371-378(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 22-36.
[8]"Signal peptide prediction based on analysis of experimentally verified cleavage sites."
Zhang Z., Henzel W.J.
Protein Sci. 13:2819-2824(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 22-36.
[9]"Identification of serum N-acetylmuramoyl-l-alanine amidase as liver peptidoglycan recognition protein 2."
Zhang Y., van der Fits L., Voerman J.S., Melief M.-J., Laman J.D., Wang M., Wang H., Wang M., Li X., Walls C.D., Gupta D., Dziarski R.
Biochim. Biophys. Acta 1752:34-46(2005)
Cited for: IDENTIFICATION BY MASS SPECTROMETRY, TISSUE SPECIFICITY, PHOSPHORYLATION AT SER-239, DEAMIDATION AT ASN-274 AND ASN-322, DISULFIDE BONDS.
Tissue: Liver and Serum.
[10]"Human peptidoglycan recognition protein-L is an N-acetylmuramoyl-L-alanine amidase."
Wang Z.-M., Li X., Cocklin R.R., Wang M., Wang M., Fukase K., Inamura S., Kusumoto S., Gupta D., Dziarski R.
J. Biol. Chem. 278:49044-49052(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, IDENTIFICATION BY MASS SPECTROMETRY, MUTAGENESIS OF HIS-411; CYS-419; HIS-436; TRP-442 AND CYS-530.
[11]"Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry."
Zhang H., Li X.-J., Martin D.B., Aebersold R.
Nat. Biotechnol. 21:660-666(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION AT ASN-485.
[12]"Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry."
Liu T., Qian W.-J., Gritsenko M.A., Camp D.G. II, Monroe M.E., Moore R.J., Smith R.D.
J. Proteome Res. 4:2070-2080(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-77; ASN-367 AND ASN-485.
Tissue: Plasma.
[13]"Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry."
Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H.
J. Proteome Res. 8:651-661(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-367 AND ASN-485.
Tissue: Liver.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF384856 mRNA. Translation: AAL05629.1.
AB073610 mRNA. Translation: BAD38647.1.
AY358156 mRNA. Translation: AAQ88523.1.
AK055882 mRNA. Translation: BAB71034.1.
AK292292 mRNA. Translation: BAF84981.1.
CH471106 Genomic DNA. Translation: EAW84482.1.
CH471106 Genomic DNA. Translation: EAW84483.1.
BC136551 mRNA. Translation: AAI36552.1.
BC136552 mRNA. Translation: AAI36553.1.
RefSeqNP_443122.3. NM_052890.3.
UniGeneHs.282244.

3D structure databases

ProteinModelPortalQ96PD5.
SMRQ96PD5. Positions 379-545.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ96PD5. 1 interaction.
STRING9606.ENSP00000345968.

Polymorphism databases

DMDM38258222.

Proteomic databases

PaxDbQ96PD5.
PeptideAtlasQ96PD5.
PRIDEQ96PD5.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000292609; ENSP00000292609; ENSG00000161031. [Q96PD5-2]
ENST00000340880; ENSP00000345968; ENSG00000161031. [Q96PD5-1]
GeneID114770.
KEGGhsa:114770.
UCSCuc002nbf.4. human. [Q96PD5-1]
uc002nbg.3. human. [Q96PD5-2]

Organism-specific databases

CTD114770.
GeneCardsGC19M015579.
HGNCHGNC:30013. PGLYRP2.
HPACAB033468.
HPA043568.
HPA046311.
MIM608199. gene.
neXtProtNX_Q96PD5.
PharmGKBPA134929965.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG5479.
HOGENOMHOG000276878.
HOVERGENHBG053578.
KOK01446.
OMAMAFLNGA.
OrthoDBEOG757CZ5.
PhylomeDBQ96PD5.
TreeFamTF323898.

Enzyme and pathway databases

BRENDA3.5.1.28. 2681.

Gene expression databases

ArrayExpressQ96PD5.
BgeeQ96PD5.
CleanExHS_PGLYRP2.
GenevestigatorQ96PD5.

Family and domain databases

Gene3D3.40.80.10. 1 hit.
InterProIPR002502. Amidase_domain.
IPR015510. PGRP.
IPR006619. PGRP_domain_met/bac.
[Graphical view]
PANTHERPTHR11022. PTHR11022. 1 hit.
PfamPF01510. Amidase_2. 1 hit.
[Graphical view]
SMARTSM00644. Ami_2. 1 hit.
SM00701. PGRP. 1 hit.
[Graphical view]
SUPFAMSSF55846. SSF55846. 1 hit.
ProtoNetSearch...

Other

GeneWikiPGLYRP2.
GenomeRNAi114770.
NextBio79141.
PROQ96PD5.
SOURCESearch...

Entry information

Entry namePGRP2_HUMAN
AccessionPrimary (citable) accession number: Q96PD5
Secondary accession number(s): A8K8C7 expand/collapse secondary AC list , B2RMZ2, Q68CK1, Q96N74, Q9UC60
Entry history
Integrated into UniProtKB/Swiss-Prot: November 7, 2003
Last sequence update: December 1, 2001
Last modified: April 16, 2014
This is version 119 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 19

Human chromosome 19: entries, gene names and cross-references to MIM