Seroatlas · Human Serome Atlas

LYSMD1

LysM and putative peptidoglycan-binding domain-containing protein 1

Also known as: LYSM1_HUMAN, MGC35223, RP11-68I18.5, SB145

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

Protein identityUniProt · HPA

UniProt accession: Q96S90
Gene: LYSMD1
Ensembl: ENSG00000163155
Chromosome: 1
Canonical length: 227 aa
Protein class: Predicted intracellular proteins
Subcellular location: Nucleoplasm

OverviewNCBI Gene

Located in nucleoplasm. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

227 residues, UniProt reviewed canonical sequence.

>Q96S90|LYSMD1
     1  MASPSRQPPP GGSGLLQGSR ARSYGSLVQS ACSPVRERRL EHQLEPGDTL AGLALKYGVT
    61  MEQIKRANRL YTNDSIFLKK TLYIPILTEP RDLFNGLDSE EEKDGEEKVH PSNSEVWPHS
   121  TERKKQETGA GRANGEVLPT PGQETPTPIH DLSASDFLKK LDSQISLSKK AAAQKLKKGE
   181  NGVPGEDAGL HLSSPWMQQR AVLGPVPLTR TSRTRTLRDQ EDEIFKL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against LYSMD1 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): 0.61
Highest tissue expression: 13 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 13 nTPM
tongue: 13 nTPM
ovary: 11 nTPM
parathyroid gland: 9.2 nTPM
cerebellum: 9.1 nTPM
retina: 8.9 nTPM

Single-cell type

cardiomyocytes: 34 nCPM
adipocytes: 18 nCPM
cone photoreceptor cells: 17 nCPM
parietal cells: 16 nCPM
retinal pigment epithelial cells: 13 nCPM
rod photoreceptor cells: 9.9 nCPM

Immune cell

neutrophil: 3.1 nTPM
naive B-cell: 1.7 nTPM
basophil: 1.6 nTPM
T-reg: 1.5 nTPM
eosinophil: 1.4 nTPM
naive CD8 T-cell: 1.4 nTPM

Brain region

cerebellum: 17 nTPM
pons: 14 nTPM
white matter: 14 nTPM
basal ganglia: 13 nTPM
cerebral cortex: 13 nTPM
hypothalamus: 13 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): 1.05
gnomAD pLI: 0.02
gnomAD missense Z: 0.73
DepMap mean gene effect: -0.31
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 16% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Cellular components

nucleoplasm

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Phosphoprotein

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads LYSMD1 as an antibody target. Whether an autoantibody or antibody against LYSMD1 could matter depends on whether native LYSMD1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

LYSMD1 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 LYSMD1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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