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Q96A99 (PTX4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 85. 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:
Pentraxin-4
Gene names
Name:PTX4
Synonyms:C16orf38
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length478 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Cofactor

Binds 2 calcium ions per subunit By similarity.

Subcellular location

Secreted Potential.

Tissue specificity

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. Ref.5

Induction

Not induced by bacterial lipopolysaccharideS (LPS) or IL1/interleukin-1 in endothelium, monocytes or neutrophils. Not induced by PHA in lymphocytes. Ref.5

Sequence similarities

Contains 1 pentaxin domain.

Ontologies

Keywords
   Cellular componentSecreted
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainSignal
   LigandCalcium
Metal-binding
   PTMDisulfide bond
Glycoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Cellular_componentextracellular region

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionmetal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 2 (identifier: Q96A99-1)

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.
Isoform 1 (identifier: Q96A99-2)

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 (PubMed=20357257).

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2525 Potential
Chain26 – 478453Pentraxin-4
PRO_0000320645

Regions

Domain271 – 469199Pentaxin

Sites

Metal binding3231Calcium 1 By similarity
Metal binding4061Calcium 1 By similarity
Metal binding4061Calcium 2 By similarity
Metal binding4071Calcium 1; via carbonyl oxygen By similarity
Metal binding4081Calcium 1 By similarity
Metal binding4081Calcium 2 By similarity

Amino acid modifications

Glycosylation671N-linked (GlcNAc...) Potential
Glycosylation911N-linked (GlcNAc...) Potential
Disulfide bond300 ↔ 364 By similarity

Natural variations

Alternative sequence1 – 4747MGCSW…RLEEQ → MGSGNWEVTGPPCGSRCERP PGLPRGVHGQFRSAVGLSGL RW in isoform 1.
VSP_040203
Natural variant21G → E.
Corresponds to variant rs2745103 [ dbSNP | Ensembl ].
VAR_060084
Natural variant921R → W.
Corresponds to variant rs2745101 [ dbSNP | Ensembl ].
VAR_039249
Natural variant2201R → G.
Corresponds to variant rs2667673 [ dbSNP | Ensembl ].
VAR_039250
Natural variant2341R → Q.
Corresponds to variant rs12445920 [ dbSNP | Ensembl ].
VAR_039251
Natural variant2811R → K.
Corresponds to variant rs2745098 [ dbSNP | Ensembl ].
VAR_039252
Natural variant3171A → S.
Corresponds to variant rs13332460 [ dbSNP | Ensembl ].
VAR_039253
Natural variant4441I → V.
Corresponds to variant rs59554810 [ dbSNP | Ensembl ].
VAR_062130

Sequences

Sequence LengthMass (Da)Tools
Isoform 2 (PTX4(2)) [UniParc].

Last modified February 26, 2008. Version 2.
Checksum: 2404908AB8A01F60

FASTA47852,339
        10         20         30         40         50         60 
MGCSWRKTLS FFLVFVPIYL HGASSQEAAP VGPRKPFFER LRRLEEQFRR FQEVTWTHLQ 

        70         80         90        100        110        120 
NIASNYNVSY NVDVRFRSLA EESQAVAQAV NRSQASVQGE LAQLKAWVRK LQRRGRKVDT 

       130        140        150        160        170        180 
RLRALDLTLG ERSQQRARER KAHKAQRDAL QDSLARLEGL VHSQGARLAA LEGRLPVAHP 

       190        200        210        220        230        240 
GTAALGPALV PTPTQPEELG PTSLKLQRDR QELRAASEHR GPPQDSSAPL QGRREPPASG 

       250        260        270        280        290        300 
SHRVLSGTAP KDPRQQAWSP QVPGEICGVG PTLVFPNAST RNVVFLSPGF VTALRALSFC 

       310        320        330        340        350        360 
SWVRTASGRL GTLLSYATED NDNKLVLHGR DSLLPGSIHF VIGDPAFREL PLQLLLDGQW 

       370        380        390        400        410        420 
HHICVIWTST QGRYWLHVDR RLVATGSRFR EGYEIPPGGS LVLGQEQDSV GGGFDSSEAF 

       430        440        450        460        470 
VGSMSGLAIW DRALVPGEVA NLAIGKEFPT GAILTLANAA LAGGFVQGAN CTCLERCP 

« Hide

Isoform 1 (PTX4(1)) (Long) [UniParc].

Checksum: C6EBA44415A855B4
Show »

FASTA47351,306

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]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].
[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]"Evolution of the pentraxin family: the new entry PTX4."
Martinez de la Torre Y., Fabbri M., Jaillon S., Bastone A., Nebuloni M., Vecchi A., Mantovani A., Garlanda C.
J. Immunol. 184:5055-5064(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION, TISSUE SPECIFICITY, ALTERNATIVE SPLICING, INDUCTION.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
RefSeqNP_001013680.1. NM_001013658.1.
UniGeneHs.553770.

3D structure databases

ProteinModelPortalQ96A99.
SMRQ96A99. Positions 270-449.
ModBaseSearch...
MobiDBSearch...

Polymorphism databases

DMDM189042530.

Proteomic databases

PaxDbQ96A99.
PRIDEQ96A99.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000293922; ENSP00000293922; ENSG00000251692. [Q96A99-2]
ENST00000447419; ENSP00000445277; ENSG00000251692. [Q96A99-1]
GeneID390667.
KEGGhsa:390667.
UCSCuc010uvf.2. human. [Q96A99-2]

Organism-specific databases

CTD390667.
GeneCardsGC16M001535.
HGNCHGNC:14171. PTX4.
MIM613442. gene.
neXtProtNX_Q96A99.
PharmGKBPA25553.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG46489.
HOVERGENHBG108201.
InParanoidQ96A99.
OMAWLHVDRR.
OrthoDBEOG74XS6F.
PhylomeDBQ96A99.
TreeFamTF330208.

Gene expression databases

BgeeQ96A99.
CleanExHS_C16orf38.
GenevestigatorQ96A99.

Family and domain databases

Gene3D2.60.120.200. 1 hit.
InterProIPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR001759. Pentaxin.
[Graphical view]
PfamPF00354. Pentaxin. 1 hit.
[Graphical view]
PRINTSPR00895. PENTAXIN.
SUPFAMSSF49899. SSF49899. 1 hit.
ProtoNetSearch...

Other

GenomeRNAi390667.
NextBio103979.
PROQ96A99.
SOURCESearch...

Entry information

Entry namePTX4_HUMAN
AccessionPrimary (citable) accession number: Q96A99
Entry history
Integrated into UniProtKB/Swiss-Prot: February 26, 2008
Last sequence update: February 26, 2008
Last modified: April 16, 2014
This is version 85 of the entry and version 2 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 16

Human chromosome 16: entries, gene names and cross-references to MIM