Seroatlas · Human Serome Atlas

TRIM40

E3 ubiquitin ligase TRIM40

Also known as: RNF35, TRI40_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q6P9F5
Gene: TRIM40
Ensembl: ENSG00000204614
Chromosome: 6
Canonical length: 258 aa
Protein class: Enzymes, Predicted intracellular proteins
Subcellular location: Cytosol

OverviewNCBI Gene

This gene encodes a member of the tripartite motif (TRIM) protein family. The encoded protein may play a role as a negative regulator against inflammation and carcinogenesis in the gastrointestinal tract. Alternatively spliced transcript variants that encode different protein isoforms have been described. [provided by RefSeq, Feb 2014]

Canonical amino-acid sequenceUniProt

258 residues, UniProt reviewed canonical sequence.

>Q6P9F5|TRIM40
     1  MIPLQKDNQE EGVCPICQES LKEAVSTNCG HLFCRVCLTQ HVEKASASGV FCCPLCRKPC
    61  SEEVLGTGYI CPNHQKRVCR FCEESRLLLC VECLVSPEHM SHHELTIENA LSHYKERLNR
   121  RSRKLRKDIA ELQRLKAQQE KKLQALQFQV DHGNHRLEAG PESQHQTREQ LGALPQQWLG
   181  QLEHMPAEAA RILDISRAVT QLRSLVIDLE RTAKELDTNT LKNAGDLLNR SAPQKLEVIY
   241  PQLEKGVSEL LLQPPQKL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against TRIM40 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): 0.38
Highest tissue expression: 2.9 nTPM

Expression across tissuesHPA

Tissue

small intestine: 2.9 nTPM
colon: 2 nTPM
liver: 1.4 nTPM
testis: 1.4 nTPM
appendix: 0.2 nTPM
kidney: 0.2 nTPM

Single-cell type

proximal tubule cells: 0.3 nCPM
enteric transient amplifying cells: 0.2 nCPM
colonocytes: 0.1 nCPM
loop of henle epithelial cells: 0.1 nCPM
microglia: 0.1 nCPM
adipocytes: 0 nCPM

Immune cell

basophil: 0 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM
intermediate monocyte: 0 nTPM
MAIT T-cell: 0 nTPM

Brain region

amygdala: 0 nTPM
basal ganglia: 0 nTPM
cerebellum: 0 nTPM
cerebral cortex: 0 nTPM
choroid plexus: 0 nTPM
hippocampal formation: 0 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): 1.83
gnomAD pLI: 0
gnomAD missense Z: 0.15
DepMap mean gene effect: -0.08
DepMap dependency class: selective

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 TRIM40 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

NEDD8

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads TRIM40 as an antibody target. Whether an autoantibody or antibody against TRIM40 could matter depends on whether native TRIM40 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

TRIM40 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 TRIM40 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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