Q96A99 (PTX4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pentraxin-4

Gene names

Name:	PTX4
Synonyms:	C16orf38

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	478 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence 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 component	Secreted
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Signal
Ligand	Calcium Metal-binding
PTM	Disulfide bond Glycoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	extracellular region Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	metal 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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 25	25	Potential
	Chain	26 – 478	453	Pentraxin-4		PRO_0000320645
Regions
	Domain	271 – 469	199	Pentaxin
Sites
	Metal binding	323	1	Calcium 1 By similarity
	Metal binding	406	1	Calcium 1 By similarity
	Metal binding	406	1	Calcium 2 By similarity
	Metal binding	407	1	Calcium 1; via carbonyl oxygen By similarity
	Metal binding	408	1	Calcium 1 By similarity
	Metal binding	408	1	Calcium 2 By similarity
Amino acid modifications
	Glycosylation	67	1	N-linked (GlcNAc...) Potential
	Glycosylation	91	1	N-linked (GlcNAc...) Potential
	Disulfide bond	300 ↔ 364		By similarity
Natural variations
	Alternative sequence	1 – 47	47	MGCSW…RLEEQ → MGSGNWEVTGPPCGSRCERP PGLPRGVHGQFRSAVGLSGL RW in isoform 1.		VSP_040203
	Natural variant	2	1	G → E. Corresponds to variant rs2745103 [ dbSNP | Ensembl ].		VAR_060084
	Natural variant	92	1	R → W. Corresponds to variant rs2745101 [ dbSNP | Ensembl ].		VAR_039249
	Natural variant	220	1	R → G. Corresponds to variant rs2667673 [ dbSNP | Ensembl ].		VAR_039250
	Natural variant	234	1	R → Q. Corresponds to variant rs12445920 [ dbSNP | Ensembl ].		VAR_039251
	Natural variant	281	1	R → K. Corresponds to variant rs2745098 [ dbSNP | Ensembl ].		VAR_039252
	Natural variant	317	1	A → S. Corresponds to variant rs13332460 [ dbSNP | Ensembl ].		VAR_039253
	Natural variant	444	1	I → V. Corresponds to variant rs59554810 [ dbSNP | Ensembl ].		VAR_062130

Sequences

	Sequence		Length	Mass (Da)
	Isoform 2 (PTX4(2)) [UniParc]. Last modified February 26, 2008. Version 2. Checksum: 2404908AB8A01F60	FASTA	478	52,339
	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
	Isoform 1 (PTX4(1)) (Long) [UniParc]. Checksum: C6EBA44415A855B4	FASTA	473	51,306
	10 20 30 40 50 60 MGSGNWEVTG PPCGSRCERP PGLPRGVHGQ FRSAVGLSGL RWFRRFQEVT WTHLQNIASN 70 80 90 100 110 120 YNVSYNVDVR FRSLAEESQA VAQAVNRSQA SVQGELAQLK AWVRKLQRRG RKVDTRLRAL 130 140 150 160 170 180 DLTLGERSQQ RARERKAHKA QRDALQDSLA RLEGLVHSQG ARLAALEGRL PVAHPGTAAL 190 200 210 220 230 240 GPALVPTPTQ PEELGPTSLK LQRDRQELRA ASEHRGPPQD SSAPLQGRRE PPASGSHRVL 250 260 270 280 290 300 SGTAPKDPRQ QAWSPQVPGE ICGVGPTLVF PNASTRNVVF LSPGFVTALR ALSFCSWVRT 310 320 330 340 350 360 ASGRLGTLLS YATEDNDNKL VLHGRDSLLP GSIHFVIGDP AFRELPLQLL LDGQWHHICV 370 380 390 400 410 420 IWTSTQGRYW LHVDRRLVAT GSRFREGYEI PPGGSLVLGQ EQDSVGGGFD SSEAFVGSMS 430 440 450 460 470 GLAIWDRALV PGEVANLAIG KEFPTGAILT LANAALAGGF VQGANCTCLE RCP

References

	« Hide 'large scale' referencesShow '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. , 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. , 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.
IPI	IPI00059308. IPI00973384.
RefSeq	NP_001013680.1. NM_001013658.1.
UniGene	Hs.553770.
3D structure databases
HSSP	HSSP built from PDB template 1LJ7 based on UniProtKB P02741.
ProteinModelPortal	Q96A99.
ModBase	Search...
Polymorphism databases
DMDM	189042530.
Proteomic databases
PaxDb	Q96A99.
PRIDE	Q96A99.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000293922; ENSP00000293922; ENSG00000251692. ENST00000447419; ENSP00000445277; ENSG00000251692.
GeneID	390667.
KEGG	hsa:390667.
UCSC	uc010uvf.2. human.
Organism-specific databases
CTD	390667.
GeneCards	GC16M001535.
HGNC	HGNC:14171. PTX4.
MIM	613442. gene.
neXtProt	NX_Q96A99.
PharmGKB	PA25553.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG46489.
HOVERGEN	HBG108201.
InParanoid	Q96A99.
OMA	WLHVDRR.
Gene expression databases
ArrayExpress	Q96A99.
Bgee	Q96A99.
CleanEx	HS_C16orf38.
Genevestigator	Q96A99.
Family and domain databases
Gene3D	2.60.120.200. 1 hit.
InterPro	IPR008985. ConA-like_lec_gl_sf. IPR013320. ConA-like_subgrp. IPR001759. Pentaxin. [Graphical view]
Pfam	PF00354. Pentaxin. 1 hit. [Graphical view]
PRINTS	PR00895. PENTAXIN.
SUPFAM	SSF49899. ConA_like_lec_gl. 1 hit.
PROSITE	PS00289. PENTAXIN. False negative. [Graphical view]
ProtoNet	Search...
Other
GenomeRNAi	390667.
NextBio	103979.
SOURCE	Search...

Entry information

Entry name

PTX4_HUMAN

Accession

Primary (citable) accession number: Q96A99

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 26, 2008
Last sequence update:	February 26, 2008
Last modified:	May 1, 2013
This is version 77 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.