Seroatlas · Human Serome Atlas

HENMT1

Small RNA 2'-O-methyltransferase

Also known as: C1orf59, FLJ30525, HEN1, HENMT_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q5T8I9
Gene: HENMT1
Ensembl: ENSG00000162639
Chromosome: 1
Canonical length: 393 aa
Protein class: Enzymes, Predicted intracellular proteins
Subcellular location: Plasma membrane,Focal adhesion sites

OverviewNCBI Gene

Enables small RNA 2'-O-methyltransferase activity. Involved in RNA methylation. Predicted to be located in P granule. Predicted to be active in cytoplasm and nucleus. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

393 residues, UniProt reviewed canonical sequence.

>Q5T8I9|HENMT1
     1  MEENNLQCSS VVDGNFEEVP RETAIQFKPP LYRQRYQFVK NLVDQHEPKK VADLGCGDTS
    61  LLRLLKVNPC IELLVGVDIN EDKLRWRGDS LAPFLGDFLK PRDLNLTITL YHGSVVERDS
   121  RLLGFDLITC IELIEHLDSG DLARFPEVVF GYLSPSMIVI STPNSEFNPL FPSVTLRDSD
   181  HKFEWTRMEF QTWALYVANR YDYSVEFTGV GEPPAGAENV GYCTQIGIFR KNGGKATESC
   241  LSEQHDQHVY KAVFTTSYPS LQQERFFKLV LVNEVSQQVE SLRVSHLPRR KEQAGERGDK
   301  PKDIGGSKAP VPCFGPVFTE VEKAKIENSP TPFCVGDKFF VPLQRLLAYP KLNRLCANEE
   361  MMRSVIADSI PLSSDGSAVV ADLRNYFDEQ FEF

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against HENMT1 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): 0.34
Highest tissue expression: 67 nTPM

Expression across tissuesHPA

Tissue

testis: 67 nTPM
thymus: 17 nTPM
bone marrow: 13 nTPM
hypothalamus: 13 nTPM
lymph node: 13 nTPM
cerebral cortex: 11 nTPM

Single-cell type

oocytes: 405 nCPM
late primary spermatocytes: 181 nCPM
early primary spermatocytes: 150 nCPM
undifferentiated spermatogonia: 119 nCPM
differentiating spermatogonia: 72 nCPM
nk-cells: 29 nCPM

Immune cell

gdT-cell: 62 nTPM
memory CD8 T-cell: 56 nTPM
MAIT T-cell: 56 nTPM
NK-cell: 56 nTPM
naive CD8 T-cell: 45 nTPM
basophil: 44 nTPM

Brain region

hypothalamus: 14 nTPM
pons: 11 nTPM
cerebral cortex: 11 nTPM
basal ganglia: 11 nTPM
white matter: 10 nTPM
midbrain: 9.5 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about HENMT1.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 75 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Azoospermia

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): 1.57
gnomAD pLI: 0
gnomAD missense Z: 0.06
DepMap mean gene effect: -0.24
DepMap dependency class: selective

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

S-adenosyl-L-methionine-dependent methyltransferase superfamily
Methyltransferase domain
3'-RNA ribose 2'-O-methyltransferase, Hen1

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads HENMT1 as an antibody target. Whether an autoantibody or antibody against HENMT1 could matter depends on whether native HENMT1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

HENMT1 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 HENMT1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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