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Q96A99

- PTX4_HUMAN

UniProt

Q96A99 - PTX4_HUMAN

Protein

Pentraxin-4

Gene

PTX4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 88 (01 Oct 2014)
      Sequence version 2 (26 Feb 2008)
      Previous versions | rss
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    Functioni

    Cofactori

    Binds 2 calcium ions per subunit.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi323 – 3231Calcium 1By similarity
    Metal bindingi406 – 4061Calcium 1By similarity
    Metal bindingi406 – 4061Calcium 2By similarity
    Metal bindingi407 – 4071Calcium 1; via carbonyl oxygenBy similarity
    Metal bindingi408 – 4081Calcium 1By similarity
    Metal bindingi408 – 4081Calcium 2By similarity

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW

    Keywords - Ligandi

    Calcium, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pentraxin-4
    Gene namesi
    Name:PTX4
    Synonyms:C16orf38
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 16

    Organism-specific databases

    HGNCiHGNC:14171. PTX4.

    Subcellular locationi

    Secreted Curated

    GO - Cellular componenti

    1. extracellular region Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA25553.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2525Sequence AnalysisAdd
    BLAST
    Chaini26 – 478453Pentraxin-4PRO_0000320645Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi67 – 671N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi91 – 911N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi300 ↔ 364By similarity

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PaxDbiQ96A99.
    PRIDEiQ96A99.

    Expressioni

    Tissue specificityi

    Widely expressed at low levels with highest levels in small intestine, testis and brain. Very low expression in endothelial cells, monocytes, neutrophils and lymphocytes. Isoform 1 is not expressed in small intestine.1 Publication

    Inductioni

    Not induced by bacterial lipopolysaccharideS (LPS) or IL1/interleukin-1 in endothelium, monocytes or neutrophils. Not induced by PHA in lymphocytes.1 Publication

    Gene expression databases

    BgeeiQ96A99.
    CleanExiHS_C16orf38.
    GenevestigatoriQ96A99.

    Structurei

    3D structure databases

    ProteinModelPortaliQ96A99.
    SMRiQ96A99. Positions 148-185, 270-449.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini271 – 469199PentaxinAdd
    BLAST

    Sequence similaritiesi

    Contains 1 pentaxin domain.Curated

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiNOG46489.
    HOVERGENiHBG108201.
    InParanoidiQ96A99.
    OMAiWLHVDRR.
    OrthoDBiEOG74XS6F.
    PhylomeDBiQ96A99.
    TreeFamiTF330208.

    Family and domain databases

    Gene3Di2.60.120.200. 1 hit.
    InterProiIPR008985. ConA-like_lec_gl_sf.
    IPR013320. ConA-like_subgrp.
    IPR001759. Pentaxin.
    [Graphical view]
    PfamiPF00354. Pentaxin. 1 hit.
    [Graphical view]
    PRINTSiPR00895. PENTAXIN.
    SUPFAMiSSF49899. SSF49899. 1 hit.

    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. Align

    Isoform 2 (identifier: Q96A99-1) [UniParc]FASTAAdd to Basket

    Also known as: PTX4(2)

    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

    MGCSWRKTLS FFLVFVPIYL HGASSQEAAP VGPRKPFFER LRRLEEQFRR    50
    FQEVTWTHLQ NIASNYNVSY NVDVRFRSLA EESQAVAQAV NRSQASVQGE 100
    LAQLKAWVRK LQRRGRKVDT RLRALDLTLG ERSQQRARER KAHKAQRDAL 150
    QDSLARLEGL VHSQGARLAA LEGRLPVAHP GTAALGPALV PTPTQPEELG 200
    PTSLKLQRDR QELRAASEHR GPPQDSSAPL QGRREPPASG SHRVLSGTAP 250
    KDPRQQAWSP QVPGEICGVG PTLVFPNAST RNVVFLSPGF VTALRALSFC 300
    SWVRTASGRL GTLLSYATED NDNKLVLHGR DSLLPGSIHF VIGDPAFREL 350
    PLQLLLDGQW HHICVIWTST QGRYWLHVDR RLVATGSRFR EGYEIPPGGS 400
    LVLGQEQDSV GGGFDSSEAF VGSMSGLAIW DRALVPGEVA NLAIGKEFPT 450
    GAILTLANAA LAGGFVQGAN CTCLERCP 478
    Length:478
    Mass (Da):52,339
    Last modified:February 26, 2008 - v2
    Checksum:i2404908AB8A01F60
    GO
    Isoform 1 (identifier: Q96A99-2) [UniParc]FASTAAdd to Basket

    Also known as: PTX4(1), Long

    The sequence of this isoform differs from the canonical sequence as follows:
         1-47: MGCSWRKTLS...FERLRRLEEQ → MGSGNWEVTG...SAVGLSGLRW

    Note: Not expressed in small intestine.1 Publication

    Show »
    Length:473
    Mass (Da):51,306
    Checksum:iC6EBA44415A855B4
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti2 – 21G → E.
    Corresponds to variant rs2745103 [ dbSNP | Ensembl ].
    VAR_060084
    Natural varianti92 – 921R → W.
    Corresponds to variant rs2745101 [ dbSNP | Ensembl ].
    VAR_039249
    Natural varianti220 – 2201R → G.
    Corresponds to variant rs2667673 [ dbSNP | Ensembl ].
    VAR_039250
    Natural varianti234 – 2341R → Q.
    Corresponds to variant rs12445920 [ dbSNP | Ensembl ].
    VAR_039251
    Natural varianti281 – 2811R → K.
    Corresponds to variant rs2745098 [ dbSNP | Ensembl ].
    VAR_039252
    Natural varianti317 – 3171A → S.
    Corresponds to variant rs13332460 [ dbSNP | Ensembl ].
    VAR_039253
    Natural varianti444 – 4441I → V.
    Corresponds to variant rs59554810 [ dbSNP | Ensembl ].
    VAR_062130

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 4747MGCSW…RLEEQ → MGSGNWEVTGPPCGSRCERP PGLPRGVHGQFRSAVGLSGL RW in isoform 1. 1 PublicationVSP_040203Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL031705 Genomic DNA. No translation available.
    AE006467 Genomic DNA. Translation: AAK61283.1.
    CH471112 Genomic DNA. Translation: EAW85652.1.
    BC156066 mRNA. Translation: AAI56067.1.
    BC156944 mRNA. Translation: AAI56945.1.
    CCDSiCCDS32362.1. [Q96A99-2]
    RefSeqiNP_001013680.1. NM_001013658.1. [Q96A99-2]
    UniGeneiHs.553770.

    Genome annotation databases

    EnsembliENST00000293922; ENSP00000293922; ENSG00000251692. [Q96A99-2]
    ENST00000447419; ENSP00000445277; ENSG00000251692. [Q96A99-1]
    GeneIDi390667.
    KEGGihsa:390667.
    UCSCiuc010uvf.2. human. [Q96A99-2]

    Polymorphism databases

    DMDMi189042530.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL031705 Genomic DNA. No translation available.
    AE006467 Genomic DNA. Translation: AAK61283.1 .
    CH471112 Genomic DNA. Translation: EAW85652.1 .
    BC156066 mRNA. Translation: AAI56067.1 .
    BC156944 mRNA. Translation: AAI56945.1 .
    CCDSi CCDS32362.1. [Q96A99-2 ]
    RefSeqi NP_001013680.1. NM_001013658.1. [Q96A99-2 ]
    UniGenei Hs.553770.

    3D structure databases

    ProteinModelPortali Q96A99.
    SMRi Q96A99. Positions 148-185, 270-449.
    ModBasei Search...
    MobiDBi Search...

    Polymorphism databases

    DMDMi 189042530.

    Proteomic databases

    PaxDbi Q96A99.
    PRIDEi Q96A99.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000293922 ; ENSP00000293922 ; ENSG00000251692 . [Q96A99-2 ]
    ENST00000447419 ; ENSP00000445277 ; ENSG00000251692 . [Q96A99-1 ]
    GeneIDi 390667.
    KEGGi hsa:390667.
    UCSCi uc010uvf.2. human. [Q96A99-2 ]

    Organism-specific databases

    CTDi 390667.
    GeneCardsi GC16M001535.
    HGNCi HGNC:14171. PTX4.
    MIMi 613442. gene.
    neXtProti NX_Q96A99.
    PharmGKBi PA25553.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG46489.
    HOVERGENi HBG108201.
    InParanoidi Q96A99.
    OMAi WLHVDRR.
    OrthoDBi EOG74XS6F.
    PhylomeDBi Q96A99.
    TreeFami TF330208.

    Miscellaneous databases

    GenomeRNAii 390667.
    NextBioi 103979.
    PROi Q96A99.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q96A99.
    CleanExi HS_C16orf38.
    Genevestigatori Q96A99.

    Family and domain databases

    Gene3Di 2.60.120.200. 1 hit.
    InterProi IPR008985. ConA-like_lec_gl_sf.
    IPR013320. ConA-like_subgrp.
    IPR001759. Pentaxin.
    [Graphical view ]
    Pfami PF00354. Pentaxin. 1 hit.
    [Graphical view ]
    PRINTSi PR00895. PENTAXIN.
    SUPFAMi SSF49899. SSF49899. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The sequence and analysis of duplication-rich human chromosome 16."
      Martin J., Han C., Gordon L.A., Terry A., Prabhakar S., She X., Xie G., Hellsten U., Chan Y.M., Altherr M., Couronne O., Aerts A., Bajorek E., Black S., Blumer H., Branscomb E., Brown N.C., Bruno W.J.
      , Buckingham J.M., Callen D.F., Campbell C.S., Campbell M.L., Campbell E.W., Caoile C., Challacombe J.F., Chasteen L.A., Chertkov O., Chi H.C., Christensen M., Clark L.M., Cohn J.D., Denys M., Detter J.C., Dickson M., Dimitrijevic-Bussod M., Escobar J., Fawcett J.J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Goodwin L.A., Grady D.L., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Hildebrand C.E., Huang W., Israni S., Jett J., Jewett P.B., Kadner K., Kimball H., Kobayashi A., Krawczyk M.-C., Leyba T., Longmire J.L., Lopez F., Lou Y., Lowry S., Ludeman T., Manohar C.F., Mark G.A., McMurray K.L., Meincke L.J., Morgan J., Moyzis R.K., Mundt M.O., Munk A.C., Nandkeshwar R.D., Pitluck S., Pollard M., Predki P., Parson-Quintana B., Ramirez L., Rash S., Retterer J., Ricke D.O., Robinson D.L., Rodriguez A., Salamov A., Saunders E.H., Scott D., Shough T., Stallings R.L., Stalvey M., Sutherland R.D., Tapia R., Tesmer J.G., Thayer N., Thompson L.S., Tice H., Torney D.C., Tran-Gyamfi M., Tsai M., Ulanovsky L.E., Ustaszewska A., Vo N., White P.S., Williams A.L., Wills P.L., Wu J.-R., Wu K., Yang J., DeJong P., Bruce D., Doggett N.A., Deaven L., Schmutz J., Grimwood J., Richardson P., Rokhsar D.S., Eichler E.E., Gilna P., Lucas S.M., Myers R.M., Rubin E.M., Pennacchio L.A.
      Nature 432:988-994(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. "Sequence, structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16."
      Daniels R.J., Peden J.F., Lloyd C., Horsley S.W., Clark K., Tufarelli C., Kearney L., Buckle V.J., Doggett N.A., Flint J., Higgs D.R.
      Hum. Mol. Genet. 10:339-352(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. "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 1).
    5. Cited for: IDENTIFICATION, TISSUE SPECIFICITY, ALTERNATIVE SPLICING, INDUCTION.

    Entry informationi

    Entry nameiPTX4_HUMAN
    AccessioniPrimary (citable) accession number: Q96A99
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 26, 2008
    Last sequence update: February 26, 2008
    Last modified: October 1, 2014
    This is version 88 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

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 16
      Human chromosome 16: 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3