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Q96LB9

- PGRP3_HUMAN

UniProt

Q96LB9 - PGRP3_HUMAN

Protein

Peptidoglycan recognition protein 3

Gene

PGLYRP3

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 106 (01 Oct 2014)
      Sequence version 1 (01 Dec 2001)
      Previous versions | rss
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    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)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei231 – 2311Murein
    Binding sitei235 – 2351Murein
    Binding sitei242 – 2421Murein

    GO - Molecular functioni

    1. N-acetylmuramoyl-L-alanine amidase activity Source: InterPro
    2. peptidoglycan binding Source: UniProtKB
    3. peptidoglycan receptor activity Source: UniProtKB
    4. zinc ion binding Source: InterPro

    GO - Biological processi

    1. defense response to Gram-positive bacterium Source: UniProtKB
    2. detection of bacterium Source: UniProtKB
    3. growth of symbiont in host Source: Ensembl
    4. innate immune response Source: UniProtKB
    5. negative regulation of interferon-gamma production Source: Ensembl
    6. negative regulation of natural killer cell differentiation involved in immune response Source: Ensembl
    7. pattern recognition receptor signaling pathway Source: GOC
    8. peptidoglycan catabolic process Source: InterPro

    Keywords - Molecular functioni

    Antibiotic, Antimicrobial

    Keywords - Biological processi

    Immunity, Innate immunity

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Peptidoglycan recognition protein 3
    Alternative name(s):
    Peptidoglycan recognition protein I-alpha
    Short name:
    PGLYRPIalpha
    Short name:
    PGRP-I-alpha
    Peptidoglycan recognition protein intermediate alpha
    Gene namesi
    Name:PGLYRP3
    Synonyms:PGRPIA
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 1

    Organism-specific databases

    HGNCiHGNC:30014. PGLYRP3.

    Subcellular locationi

    Secreted 1 Publication

    GO - Cellular componenti

    1. extracellular region Source: UniProtKB-SubCell
    2. intracellular Source: UniProtKB
    3. membrane Source: UniProtKB

    Keywords - Cellular componenti

    Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA134861692.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 1717Sequence AnalysisAdd
    BLAST
    Chaini18 – 341324Peptidoglycan recognition protein 3PRO_0000023923Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi113 – 1131N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi178 ↔ 300
    Disulfide bondi194 ↔ 238
    Disulfide bondi214 ↔ 220

    Post-translational modificationi

    N-glycosylated.1 Publication

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PaxDbiQ96LB9.
    PRIDEiQ96LB9.

    PTM databases

    PhosphoSiteiQ96LB9.

    Expressioni

    Tissue specificityi

    Detected in skin epidermis, eccrine sweat glands and ducts, ciliary body epithelial cells of the eye, in small intestine, colon, stomach and in mature epithelial cells of the tongue (at protein level). Highly expressed in skin and esophagus, expressed also in tonsils and thymus and to a much lesser extent in the stomach, descending colon, rectum and brain.2 Publications

    Inductioni

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

    Gene expression databases

    BgeeiQ96LB9.
    CleanExiHS_PGLYRP3.
    GenevestigatoriQ96LB9.

    Organism-specific databases

    HPAiHPA030369.

    Interactioni

    Subunit structurei

    Monomer. Homodimer; disulfide-linked. Heterodimer with PGLYRP4; disulfide-linked.4 Publications

    Protein-protein interaction databases

    STRINGi9606.ENSP00000290722.

    Structurei

    Secondary structure

    1
    341
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi184 – 1874
    Beta strandi199 – 20810
    Helixi217 – 23317
    Beta strandi243 – 2464
    Beta strandi252 – 2565
    Beta strandi258 – 2603
    Beta strandi263 – 2653
    Turni269 – 2713
    Beta strandi272 – 2798
    Beta strandi282 – 2843
    Helixi288 – 30316
    Beta strandi306 – 31510
    Helixi316 – 3183
    Beta strandi320 – 3223
    Helixi328 – 3336
    Turni337 – 3404

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1SK3X-ray2.80A177-341[»]
    1SK4X-ray1.65A179-341[»]
    1TWQX-ray2.30A177-341[»]
    2APHX-ray2.10A/B177-341[»]
    ProteinModelPortaliQ96LB9.
    SMRiQ96LB9. Positions 21-341.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ96LB9.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni264 – 2696Interaction with murein

    Sequence similaritiesi

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiCOG5479.
    HOGENOMiHOG000267017.
    HOVERGENiHBG053579.
    InParanoidiQ96LB9.
    KOiK01446.
    OMAiVEKPPNA.
    OrthoDBiEOG757CZ5.
    PhylomeDBiQ96LB9.
    TreeFamiTF323898.

    Family and domain databases

    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.

    Sequencei

    Sequence statusi: Complete.

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

    Q96LB9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGTLPWLLAF FILGLQAWDT PTIVSRKEWG ARPLACRALL TLPVAYIITD    50
    QLPGMQCQQQ SVCSQMLRGL QSHSVYTIGW CDVAYNFLVG DDGRVYEGVG 100
    WNIQGLHTQG YNNISLGIAF FGNKIGSSPS PAALSAAEGL ISYAIQKGHL 150
    SPRYIQPLLL KEETCLDPQH PVMPRKVCPN IIKRSAWEAR ETHCPKMNLP 200
    AKYVIIIHTA GTSCTVSTDC QTVVRNIQSF HMDTRNFCDI GYHFLVGQDG 250
    GVYEGVGWHI QGSHTYGFND IALGIAFIGY FVEKPPNAAA LEAAQDLIQC 300
    AVVEGYLTPN YLLMGHSDVV NILSPGQALY NIISTWPHFK H 341
    Length:341
    Mass (Da):37,611
    Last modified:December 1, 2001 - v1
    Checksum:i8ADD5AA97B632076
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti35 – 351A → T.
    Corresponds to variant rs55991125 [ dbSNP | Ensembl ].
    VAR_061515
    Natural varianti126 – 1261G → S.1 Publication
    Corresponds to variant rs843971 [ dbSNP | Ensembl ].
    VAR_024561

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY035376 mRNA. Translation: AAK72484.1.
    AL591704, AL161636 Genomic DNA. Translation: CAI19491.1.
    AL161636, AL591704 Genomic DNA. Translation: CAI19556.1.
    BC069741 mRNA. Translation: AAH69741.1.
    BC069798 mRNA. Translation: AAH69798.1.
    BC069801 mRNA. Translation: AAH69801.1.
    BC128114 mRNA. Translation: AAI28115.1.
    BC128115 mRNA. Translation: AAI28116.1.
    CCDSiCCDS1035.1.
    RefSeqiNP_443123.1. NM_052891.1.
    UniGeneiHs.348266.

    Genome annotation databases

    EnsembliENST00000290722; ENSP00000290722; ENSG00000159527.
    GeneIDi114771.
    KEGGihsa:114771.
    UCSCiuc001fbn.1. human.

    Polymorphism databases

    DMDMi38604974.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY035376 mRNA. Translation: AAK72484.1 .
    AL591704 , AL161636 Genomic DNA. Translation: CAI19491.1 .
    AL161636 , AL591704 Genomic DNA. Translation: CAI19556.1 .
    BC069741 mRNA. Translation: AAH69741.1 .
    BC069798 mRNA. Translation: AAH69798.1 .
    BC069801 mRNA. Translation: AAH69801.1 .
    BC128114 mRNA. Translation: AAI28115.1 .
    BC128115 mRNA. Translation: AAI28116.1 .
    CCDSi CCDS1035.1.
    RefSeqi NP_443123.1. NM_052891.1.
    UniGenei Hs.348266.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1SK3 X-ray 2.80 A 177-341 [» ]
    1SK4 X-ray 1.65 A 179-341 [» ]
    1TWQ X-ray 2.30 A 177-341 [» ]
    2APH X-ray 2.10 A/B 177-341 [» ]
    ProteinModelPortali Q96LB9.
    SMRi Q96LB9. Positions 21-341.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 9606.ENSP00000290722.

    PTM databases

    PhosphoSitei Q96LB9.

    Polymorphism databases

    DMDMi 38604974.

    Proteomic databases

    PaxDbi Q96LB9.
    PRIDEi Q96LB9.

    Protocols and materials databases

    DNASUi 114771.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000290722 ; ENSP00000290722 ; ENSG00000159527 .
    GeneIDi 114771.
    KEGGi hsa:114771.
    UCSCi uc001fbn.1. human.

    Organism-specific databases

    CTDi 114771.
    GeneCardsi GC01M153270.
    HGNCi HGNC:30014. PGLYRP3.
    HPAi HPA030369.
    MIMi 608197. gene.
    neXtProti NX_Q96LB9.
    PharmGKBi PA134861692.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG5479.
    HOGENOMi HOG000267017.
    HOVERGENi HBG053579.
    InParanoidi Q96LB9.
    KOi K01446.
    OMAi VEKPPNA.
    OrthoDBi EOG757CZ5.
    PhylomeDBi Q96LB9.
    TreeFami TF323898.

    Miscellaneous databases

    EvolutionaryTracei Q96LB9.
    GenomeRNAii 114771.
    NextBioi 79145.
    PROi Q96LB9.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q96LB9.
    CleanExi HS_PGLYRP3.
    Genevestigatori Q96LB9.

    Family and domain databases

    Gene3Di 3.40.80.10. 2 hits.
    InterProi IPR002502. Amidase_domain.
    IPR015510. PGRP.
    IPR006619. PGRP_domain_met/bac.
    [Graphical view ]
    PANTHERi PTHR11022. PTHR11022. 1 hit.
    Pfami PF01510. Amidase_2. 2 hits.
    [Graphical view ]
    SMARTi SM00644. Ami_2. 2 hits.
    SM00701. PGRP. 2 hits.
    [Graphical view ]
    SUPFAMi SSF55846. SSF55846. 2 hits.
    ProtoNeti Search...

    Publicationsi

    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], TISSUE SPECIFICITY.
    2. "The DNA sequence and biological annotation of human chromosome 1."
      Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
      , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
      Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. "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], VARIANT SER-126.
    4. "Peptidoglycan recognition proteins are a new class of human bactericidal proteins."
      Lu X., Wang M., Qi J., Wang H., Li X., Gupta D., Dziarski R.
      J. Biol. Chem. 281:5895-5907(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBUNIT, GLYCOSYLATION, SUBCELLULAR LOCATION, INDUCTION, TISSUE SPECIFICITY.
    5. "Crystal structure of the C-terminal peptidoglycan-binding domain of human peptidoglycan recognition protein Ialpha."
      Guan R., Malchiodi E.L., Wang Q., Schuck P., Mariuzza R.A.
      J. Biol. Chem. 279:31873-31882(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.65 ANGSTROMS) OF 177-341, SUBUNIT.
    6. "Structural basis for peptidoglycan binding by peptidoglycan recognition proteins."
      Guan R., Roychowdhury A., Ember B., Kumar S., Boons G.-J., Mariuzza R.A.
      Proc. Natl. Acad. Sci. U.S.A. 101:17168-17173(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.30 ANGSTROMS) OF 177-341 IN COMPLEX WITH MUREIN FRAGMENT.
    7. "Crystal structure of human peptidoglycan recognition protein I alpha bound to a muramyl pentapeptide from Gram-positive bacteria."
      Guan R., Brown P.H., Swaminathan C.P., Roychowdhury A., Boons G.-J., Mariuzza R.A.
      Protein Sci. 15:1199-1206(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 177-341 IN COMPLEX WITH MUREIN FRAGMENT.

    Entry informationi

    Entry nameiPGRP3_HUMAN
    AccessioniPrimary (citable) accession number: Q96LB9
    Secondary accession number(s): A1A4U8, Q5SY65
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 28, 2003
    Last sequence update: December 1, 2001
    Last modified: October 1, 2014
    This is version 106 of the entry and version 1 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

    External Data

    Dasty 3