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Q96A99

- PTX4_HUMAN

UniProt

Q96A99 - PTX4_HUMAN

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Protein

Pentraxin-4

Gene

PTX4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli

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
Complete GO annotation...

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-KW
Complete GO annotation...

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.
ExpressionAtlasiQ96A99. baseline.
GenevestigatoriQ96A99.

Structurei

3D structure databases

ProteinModelPortaliQ96A99.
SMRiQ96A99. Positions 150-179, 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.
GeneTreeiENSGT00760000119128.
HOVERGENiHBG108201.
InParanoidiQ96A99.
OMAiWLHVDRR.
OrthoDBiEOG74XS6F.
PhylomeDBiQ96A99.
TreeFamiTF330208.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR013320. ConA-like_dom.
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

        10         20         30         40         50
MGCSWRKTLS FFLVFVPIYL HGASSQEAAP VGPRKPFFER LRRLEEQFRR
60 70 80 90 100
FQEVTWTHLQ NIASNYNVSY NVDVRFRSLA EESQAVAQAV NRSQASVQGE
110 120 130 140 150
LAQLKAWVRK LQRRGRKVDT RLRALDLTLG ERSQQRARER KAHKAQRDAL
160 170 180 190 200
QDSLARLEGL VHSQGARLAA LEGRLPVAHP GTAALGPALV PTPTQPEELG
210 220 230 240 250
PTSLKLQRDR QELRAASEHR GPPQDSSAPL QGRREPPASG SHRVLSGTAP
260 270 280 290 300
KDPRQQAWSP QVPGEICGVG PTLVFPNAST RNVVFLSPGF VTALRALSFC
310 320 330 340 350
SWVRTASGRL GTLLSYATED NDNKLVLHGR DSLLPGSIHF VIGDPAFREL
360 370 380 390 400
PLQLLLDGQW HHICVIWTST QGRYWLHVDR RLVATGSRFR EGYEIPPGGS
410 420 430 440 450
LVLGQEQDSV GGGFDSSEAF VGSMSGLAIW DRALVPGEVA NLAIGKEFPT
460 470
GAILTLANAA LAGGFVQGAN CTCLERCP
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 150-179, 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.
GeneTreei ENSGT00760000119128.
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.
ExpressionAtlasi Q96A99. baseline.
Genevestigatori Q96A99.

Family and domain databases

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

Publicationsi

« Hide 'large scale' publications
  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 29, 2014
This is version 89 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