Seroatlas · Human Serome Atlas

LYRM1

LYR motif-containing protein 1

Also known as: A211C6.1, LYRM1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: O43325
Gene: LYRM1
Ensembl: ENSG00000102897
Chromosome: 16
Canonical length: 122 aa
Protein class: Disease related genes, Predicted intracellular proteins
Subcellular location: Nucleoplasm,Midbody

OverviewNCBI Gene

The protein encoded by this gene belongs to the mitochondrial leucine/tyrosine/arginine motif family of proteins. Proteins of this family are short polypeptides that contain a leucine/tyrosine/arginine motif near the N-terminus. This gene is widely expressed with high levels in omental adipose tissue of obese individuals. In adipose tissue, the protein is localized to the nucleus where it promotes preadipocyte proliferation and lowers the rate of apoptosis to regulate adipose tissue homeostasis. Overexpression of this gene in adipocytes causes abnormal mitochondrial morphology and mitochondrial dysfunction. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]

Canonical amino-acid sequenceUniProt

122 residues, UniProt reviewed canonical sequence.

>O43325|LYRM1
     1  MTTATRQEVL GLYRSIFRLA RKWQATSGQM EDTIKEKQYI LNEARTLFRK NKNLTDTDLI
    61  KQCIDECTAR IEIGLHYKIP YPRPIHLPPM GLTPLRGRGL RSQEKLRKLS KPVYLRSHDE
   121  VS

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LYRM1 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: 90 nTPM

Expression across tissuesHPA

Tissue

liver: 90 nTPM
kidney: 48 nTPM
heart muscle: 44 nTPM
choroid plexus: 38 nTPM
skeletal muscle: 38 nTPM
adipose tissue: 36 nTPM

Single-cell type

late spermatids: 779 nCPM
early spermatids: 204 nCPM
late primary spermatocytes: 199 nCPM
neutrophils: 113 nCPM
esophageal apical cells: 106 nCPM
epicardial cells: 102 nCPM

Immune cell

basophil: 155 nTPM
neutrophil: 64 nTPM
eosinophil: 59 nTPM
T-reg: 33 nTPM
memory CD4 T-cell: 30 nTPM
memory B-cell: 30 nTPM

Brain region

choroid plexus: 29 nTPM
pons: 23 nTPM
cerebellum: 23 nTPM
hypothalamus: 22 nTPM
cerebral cortex: 22 nTPM
white matter: 22 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): 1.92
gnomAD pLI: 0
gnomAD missense Z: -0.42
DepMap mean gene effect: 0.16
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Cellular components

Protein domainsUniProt · Pfam · InterPro

Complex 1 LYR protein domain
Complex 1 protein (LYR family)
LYR motif-containing protein 1
LYRM1, LYR domain

KeywordsUniProt

Nucleus

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads LYRM1 as an antibody target. Whether an autoantibody or antibody against LYRM1 could matter depends on whether native LYRM1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LYRM1 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 LYRM1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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