Seroatlas · Human Serome Atlas

LSM3

U6 snRNA-associated Sm-like protein LSm3

Also known as: LSM3_HUMAN, SMX4, USS2, YLR438C

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

Protein identityUniProt · HPA

UniProt accession: P62310
Gene: LSM3
Ensembl: ENSG00000170860
Chromosome: 3
Canonical length: 102 aa
Protein class: Plasma proteins, Predicted intracellular proteins
Subcellular location: Nucleoplasm,Nucleoli

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

102 residues, UniProt reviewed canonical sequence.

>P62310|LSM3
     1  MADDVDQQQT TNTVEEPLDL IRLSLDERIY VKMRNDRELR GRLHAYDQHL NMILGDVEET
    61  VTTIEIDEET YEEIYKSTKR NIPMLFVRGD GVVLVAPPLR VG

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LSM3 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): 0.4
Highest tissue expression: 28 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 28 nTPM
kidney: 22 nTPM
tongue: 21 nTPM
bone marrow: 18 nTPM
liver: 17 nTPM
heart muscle: 17 nTPM

Single-cell type

late primary spermatocytes: 527 nCPM
esophageal basal cells: 526 nCPM
oocytes: 497 nCPM
extravillous trophoblasts: 492 nCPM
migrating cytotrophoblasts: 470 nCPM
cytotrophoblasts: 460 nCPM

Immune cell

basophil: 44 nTPM
eosinophil: 30 nTPM
plasmacytoid DC: 29 nTPM
memory B-cell: 27 nTPM
total PBMC: 26 nTPM
intermediate monocyte: 24 nTPM

Brain region

cerebellum: 9.4 nTPM
white matter: 9.2 nTPM
hypothalamus: 8.8 nTPM
cerebral cortex: 8.7 nTPM
basal ganglia: 8.1 nTPM
medulla oblongata: 8.1 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): 1.77
gnomAD pLI: 0
gnomAD missense Z: 0.4
DepMap mean gene effect: -1.86
DepMap dependency class: pan

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

Sm domain, eukaryotic/archaea-type
LSM domain superfamily
Sm domain
LSM domain
Sm-like protein Lsm3
U6 snRNA-associated Sm-like protein Lsm3

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of LSM3 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 LSM3 as an antibody target. Whether an autoantibody or antibody against LSM3 could matter depends on whether native LSM3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LSM3 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 LSM3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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