Seroatlas · Human Serome Atlas

LSM5

U6 snRNA-associated Sm-like protein LSm5

Also known as: LSM5_HUMAN, YER146W

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

Protein identityUniProt · HPA

UniProt accession: Q9Y4Y9
Gene: LSM5
Ensembl: ENSG00000106355
Chromosome: 7
Canonical length: 91 aa
Protein class: Predicted intracellular proteins

OverviewNCBI Gene

Sm-like proteins were identified in a variety of organisms based on sequence homology with the Sm protein family (see SNRPD2; MIM 601061). Sm-like proteins contain the Sm sequence motif, which consists of 2 regions separated by a linker of variable length that folds as a loop. The Sm-like proteins are thought to form a stable heteromer present in tri-snRNP particles, which are important for pre-mRNA splicing.[supplied by OMIM, Apr 2004]

Canonical amino-acid sequenceUniProt

91 residues, UniProt reviewed canonical sequence.

>Q9Y4Y9|LSM5
     1  MAANATTNPS QLLPLELVDK CIGSRIHIVM KSDKEIVGTL LGFDDFVNMV LEDVTEFEIT
    61  PEGRRITKLD QILLNGNNIT MLVPGGEGPE V

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LSM5 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: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.38
Highest tissue expression: 73 nTPM

Expression across tissuesHPA

Tissue

bone marrow: 73 nTPM
liver: 71 nTPM
tonsil: 68 nTPM
thymus: 63 nTPM
breast: 58 nTPM
lymph node: 58 nTPM

Single-cell type

gastric progenitor cells: 860 nCPM
gastric chief cells: 442 nCPM
parietal cells: 440 nCPM
esophageal basal cells: 385 nCPM
extravillous trophoblasts: 342 nCPM
hepatocytes: 320 nCPM

Immune cell

plasmacytoid DC: 100 nTPM
naive CD4 T-cell: 90 nTPM
memory B-cell: 70 nTPM
naive CD8 T-cell: 69 nTPM
memory CD4 T-cell: 63 nTPM
naive B-cell: 61 nTPM

Brain region

cerebral cortex: 13 nTPM
basal ganglia: 11 nTPM
cerebellum: 11 nTPM
white matter: 11 nTPM
hypothalamus: 11 nTPM
spinal cord: 11 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): 1.36
gnomAD pLI: 0.03
gnomAD missense Z: 0.83
DepMap mean gene effect: -1.52
DepMap dependency class: pan

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 10% 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

InteractionsUniProt · HPA

Protein binding partners of LSM5 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads LSM5 as an antibody target. Whether an autoantibody or antibody against LSM5 could matter depends on whether native LSM5 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LSM5 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label LSM5 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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