Seroatlas · Human Serome Atlas

LSM6

U6 snRNA-associated Sm-like protein LSm6

Also known as: LSM6_HUMAN, YDR378C

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

Protein identityUniProt · HPA

UniProt accession: P62312
Gene: LSM6
Ensembl: ENSG00000164167
Chromosome: 4
Canonical length: 80 aa
Protein class: Predicted intracellular proteins
Subcellular location: Actin filaments

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

80 residues, UniProt reviewed canonical sequence.

>P62312|LSM6
     1  MSLRKQTPSD FLKQIIGRPV VVKLNSGVDY RGVLACLDGY MNIALEQTEE YVNGQLKNKY
    61  GDAFIRGNNV LYISTQKRRM

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LSM6 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): 0.39
Highest tissue expression: 17 nTPM

Expression across tissuesHPA

Tissue

lymph node: 17 nTPM
tonsil: 13 nTPM
thymus: 12 nTPM
spleen: 11 nTPM
adipose tissue: 11 nTPM
bone marrow: 11 nTPM

Single-cell type

oocytes: 309 nCPM
differentiating spermatogonia: 225 nCPM
extravillous trophoblasts: 220 nCPM
gastric progenitor cells: 217 nCPM
migrating cytotrophoblasts: 178 nCPM
early primary spermatocytes: 165 nCPM

Immune cell

non-classical monocyte: 60 nTPM
intermediate monocyte: 44 nTPM
naive B-cell: 34 nTPM
memory B-cell: 33 nTPM
total PBMC: 31 nTPM
T-reg: 28 nTPM

Brain region

cerebellum: 15 nTPM
midbrain: 11 nTPM
hypothalamus: 10 nTPM
medulla oblongata: 10 nTPM
pons: 10 nTPM
spinal cord: 9.9 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): 0.45
gnomAD pLI: 0.87
gnomAD missense Z: 1.54
DepMap mean gene effect: -0.9
DepMap dependency class: common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% 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 LSM6 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 LSM6 as an antibody target. Whether an autoantibody or antibody against LSM6 could matter depends on whether native LSM6 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LSM6 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 LSM6 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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