P47992 (XCL1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Lymphotactin

Alternative name(s):
ATAC
C motif chemokine 1
Cytokine SCM-1
Lymphotaxin
SCM-1-alpha
Small-inducible cytokine C1
XC chemokine ligand 1

Gene names

Name:	XCL1
Synonyms:	LTN, SCYC1

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	114 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Chemotactic activity for lymphocytes but not for monocytes or neutrophils.
Subcellular location	Secreted.
Tissue specificity	Highest level in spleen, lower in peripheral leukocytes and very low levels in lung, colon and small intestine.
Sequence similarities	Belongs to the intercrine gamma family.

Ontologies

Keywords
Biological process	Chemotaxis
Cellular component	Secreted
Domain	Signal
Molecular function	Cytokine
PTM	Disulfide bond
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	cell-cell signaling Inferred from direct assay Ref.1. Source: BHF-UCL cellular response to interleukin-4 Inferred from sequence or structural similarity. Source: BHF-UCL cellular response to transforming growth factor beta stimulus Inferred from sequence or structural similarity. Source: BHF-UCL immune response Inferred from electronic annotation. Source: InterPro mature natural killer cell chemotaxis Inferred from direct assay PubMed 9029087. Source: BHF-UCL negative regulation of CD4-positive, alpha-beta T cell proliferation Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of T cell cytokine production Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of T-helper 1 cell activation Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of T-helper 1 type immune response Inferred by curator PubMed 10887101. Source: BHF-UCL negative regulation of interferon-gamma production Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of interleukin-2 production Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of sequence-specific DNA binding transcription factor activity Inferred from direct assay PubMed 10887101. Source: BHF-UCL negative regulation of transcription, DNA-dependent Inferred from direct assay PubMed 10887101. Source: BHF-UCL neutrophil chemotaxis Traceable author statement PubMed 11889129. Source: BHF-UCL positive regulation of B cell chemotaxis Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of CD4-positive, alpha-beta T cell proliferation Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of CD8-positive, alpha-beta T cell proliferation Inferred from direct assay PubMed 10887101. Source: BHF-UCL positive regulation of T cell chemotaxis Inferred from direct assay Ref.1. Source: BHF-UCL positive regulation of T cell mediated cytotoxicity Inferred from direct assay PubMed 18832695. Source: BHF-UCL positive regulation of T-helper 1 cell cytokine production Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of T-helper 2 cell cytokine production Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of granzyme A production Inferred from direct assay PubMed 18832695. Source: BHF-UCL positive regulation of granzyme B production Inferred from direct assay PubMed 18832695. Source: BHF-UCL positive regulation of immunoglobulin production in mucosal tissue Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of interleukin-10 production Inferred from direct assay PubMed 18832695. Source: BHF-UCL positive regulation of natural killer cell chemotaxis Inferred from direct assay PubMed 9029087. Source: BHF-UCL positive regulation of neutrophil chemotaxis Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of release of sequestered calcium ion into cytosol Inferred from direct assay Ref.1. Source: BHF-UCL positive regulation of thymocyte migration Inferred from sequence or structural similarity. Source: BHF-UCL positive regulation of transforming growth factor beta production Inferred from direct assay PubMed 18832695. Source: BHF-UCL regulation of inflammatory response Inferred from direct assay PubMed 18832695. Source: BHF-UCL release of sequestered calcium ion into cytosol Inferred from sequence or structural similarity. Source: BHF-UCL response to virus Inferred from direct assay PubMed 14734774. Source: BHF-UCL signal transduction Inferred by curator PubMed 9632725. Source: BHF-UCL
Cellular_component	extracellular space Inferred from sequence or structural similarity. Source: BHF-UCL
Molecular_function	chemokine activity Inferred from direct assay Ref.1. Source: BHF-UCL protein homodimerization activity Inferred from direct assay PubMed 11889129. Source: BHF-UCL
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 21

21

Potential

Chain

22 – 114

93

Lymphotactin

PRO_0000005248

Amino acid modifications

Disulfide bond

32 ↔ 69

Ref.7

Secondary structure

1

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114

Helix Strand Turn

Details...

Beta strand

33 – 35

3

Helix

42 – 44

3

Beta strand

45 – 50

6

Beta strand

53 – 55

3

Beta strand

57 – 62

6

Beta strand

65 – 70

6

Beta strand

72 – 74

3

Helix

75 – 82

8

Helix

85 – 87

3

Turn

88 – 91

4

Sequences

	Sequence		Length	Mass (Da)
	P47992 [UniParc]. Last modified February 1, 1996. Version 1. Checksum: FABA16063C3FC165	FASTA	114	12,517
	10 20 30 40 50 60 MRLLILALLG ICSLTAYIVE GVGSEVSDKR TCVSLTTQRL PVSRIKTYTI TEGSLRAVIF 70 80 90 100 110 ITKRGLKVCA DPQATWVRDV VRSMDRKSNT RNNMIQTKPT GTQQSTNTAV TLTG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning and functional characterization of human lymphotactin." Kennedy J., Kelner G.S., Kleyensteuber S., Schall T.J., Weiss M.C., Yssel H., Schneider P.V., Cocks B.G., Bacon K.B., Zlotnik A. J. Immunol. 155:203-209(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"Molecular cloning of a novel C or gamma type chemokine, SCM-1." Yoshida T., Imai T., Kakizaki M., Nishimura M., Yoshie O. FEBS Lett. 360:155-159(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Peripheral blood.
[3]	"Cloning of ATAC, an activation-induced, chemokine-related molecule exclusively expressed in CD8+ T lymphocytes." Mueller S., Dorner B., Korthauer U., Mages H.W., D'Apuzzo M., Senger G., Kroczek R.A. Eur. J. Immunol. 25:1744-1748(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Peripheral blood.
[4]	"Structure and expression of two highly related genes encoding SCM-1/human lymphotactin." Yoshida T., Imai T., Takagi S., Nishimura M., Ishikawa I., Yaoi T., Yoshie O. FEBS Lett. 395:82-88(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Tissue: Placenta.
[5]	"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].
[6]	"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]. Tissue: Blood.
[7]	"Monomeric solution structure of the prototypical 'C' chemokine lymphotactin." Kuloglu E.S., McCaslin D.R., Kitabwalla M., Pauza C.D., Markley J.L., Volkman B.F. Biochemistry 40:12486-12496(2001) [PubMed] [Europe PMC] [Abstract] Cited for: STRUCTURE BY NMR OF 22-114, DISULFIDE BOND.
+	Additional computationally mapped references.

Web resources

Wikipedia

XCL1 entry

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U23772 mRNA. Translation: AAC50164.1.
D43768 mRNA. Translation: BAA07825.1.
X86474 mRNA. Translation: CAA60198.1.
D63790 Genomic DNA. Translation: BAA09859.1.
AL031736 Genomic DNA. Translation: CAB46691.1.
BC069817 mRNA. Translation: AAH69817.1.
BC070309 mRNA. Translation: AAH70309.1.

IPI

IPI00026979.

PIR

ETHUL. S60650.

RefSeq

NP_002986.1. NM_002995.2.

UniGene

Hs.546295.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1J8I	NMR	-	A	22-114	[»]
1J9O	NMR	-	A	22-114	[»]
2HDM	NMR	-	A	23-114	[»]
2JP1	NMR	-	A/B	22-114	[»]
2NYZ	X-ray	2.60	D/E	22-114	[»]

ProteinModelPortal

P47992.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-29876N.

STRING

9606.ENSP00000356792.

Polymorphism databases

DMDM

1346471.

Proteomic databases

PaxDb

P47992.

PRIDE

P47992.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000367818; ENSP00000356792; ENSG00000143184.

GeneID

6375.

KEGG

hsa:6375.

UCSC

uc001gfo.2. human.

Organism-specific databases

CTD

6375.

GeneCards

GC01P168545.

HGNC

HGNC:10645. XCL1.

MIM

600250. gene.

neXtProt

NX_P47992.

PharmGKB

PA35575.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG47852.

HOGENOM

HOG000036685.

HOVERGEN

HBG102118.

InParanoid

P47992.

KO

K05507.

OMA

CADPQAK.

OrthoDB

EOG4XSKRH.

PhylomeDB

P47992.

Enzyme and pathway databases

Reactome

REACT_111102. Signal Transduction.

Gene expression databases

Bgee

P47992.

CleanEx

HS_XCL1.

Genevestigator

P47992.

GermOnline

ENSG00000143184. Homo sapiens.

Family and domain databases

InterPro

IPR001811. Chemokine_IL8-like_dom.
IPR008105. Chemokine_XCL1.
[Graphical view]

Pfam

PF00048. IL8. 1 hit.
[Graphical view]

PRINTS

PR01731. LYMPHOTACTIN.

SMART

SM00199. SCY. 1 hit.
[Graphical view]

SUPFAM

SSF54117. Chemokine_IL8. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

P47992.

GenomeRNAi

6375.

NextBio

24768.

PMAP-CutDB

P47992.

SOURCE

Search...

Entry information

Entry name

XCL1_HUMAN

Accession

Primary (citable) accession number: P47992
Secondary accession number(s): Q52MA8

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	February 1, 1996
Last modified:	May 1, 2013
This is version 120 of the entry and version 1 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.