Seroatlas · Human Serome Atlas

XCL1

Lymphotactin

Also known as: ATAC, LPTN, LTN, SCM-1, SCM-1a, SCYC1, XCL1_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: P47992
Gene: XCL1
Ensembl: ENSG00000143184
Chromosome: 1
Canonical length: 114 aa
Protein class: Predicted secreted proteins
Secretome location: Secreted to blood

OverviewNCBI Gene

This antimicrobial gene encodes a member of the chemokine superfamily. Chemokines function in inflammatory and immunological responses, inducing leukocyte migration and activation. The encoded protein is a member of the C-chemokine subfamily, retaining only two of four cysteines conserved in other chemokines, and is thought to be specifically chemotactic for T cells. This gene and a closely related family member are located on the long arm of chromosome 1. [provided by RefSeq, Sep 2014]

Canonical amino-acid sequenceUniProt

114 residues, UniProt reviewed canonical sequence.

>P47992|XCL1
     1  MRLLILALLG ICSLTAYIVE GVGSEVSDKR TCVSLTTQRL PVSRIKTYTI TEGSLRAVIF
    61  ITKRGLKVCA DPQATWVRDV VRSMDRKSNT RNNMIQTKPT GTQQSTNTAV TLTG

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against XCL1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability: Secreted
Secreted: Yes
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.5
Highest tissue expression: 4.3 nTPM

Expression across tissuesHPA

Tissue

spleen: 4.3 nTPM
thymus: 3.8 nTPM
bone marrow: 3.3 nTPM
liver: 2.5 nTPM
lymph node: 2.2 nTPM
endometrium: 2.1 nTPM

Single-cell type

innate lymphoid cells: 314 nCPM
nk-cells: 232 nCPM
t-cells: 155 nCPM
pdcs: 21 nCPM
endometrial secretory cells: 12 nCPM
plasma cells: 4.6 nCPM

Immune cell

NK-cell: 89 nTPM
gdT-cell: 6.2 nTPM
memory CD8 T-cell: 6 nTPM
naive CD8 T-cell: 4 nTPM
basophil: 3.3 nTPM
total PBMC: 1.7 nTPM

Brain region

hypothalamus: 1.2 nTPM
pons: 0.4 nTPM
medulla oblongata: 0.2 nTPM
spinal cord: 0.2 nTPM
white matter: 0.2 nTPM
basal ganglia: 0.1 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance): 1.87
gnomAD pLI: 0
gnomAD missense Z: -0.13
DepMap mean gene effect: -0.12
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads XCL1 as an antibody target. Whether an autoantibody or antibody against XCL1 could matter depends on whether native XCL1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

XCL1 is annotated as secreted, so native XCL1 circulates and is directly accessible to antibodies. Secreted and cell-surface proteins are the autoantibody targets most likely to act like drugs, blocking or depleting the native protein.

Annotation status

The present source text does not explicitly label XCL1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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