Seroatlas · Human Serome Atlas

ZCCHC3

Zinc finger CCHC domain-containing protein 3

Also known as: C20orf99, dJ1103G7.7, ZCHC3_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q9NUD5
Gene: ZCCHC3
Ensembl: ENSG00000247315
Chromosome: 20
Canonical length: 403 aa
Protein class: Predicted intracellular proteins
Subcellular location: Vesicles

OverviewNCBI Gene

Enables double-stranded DNA binding activity. Involved in cellular response to exogenous dsRNA; detection of virus; and positive regulation of innate immune response. Located in cytoplasm. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

403 residues, UniProt reviewed canonical sequence.

>Q9NUD5|ZCCHC3
     1  MATGGGAEEE RKRGRPQLLP PARPAARGEE ADGGREKMGW AQVVKNLAEK KGEFREPRPP
    61  RREEESGGGG GSAGLGGPAG LAAPDLGDFP PAGRGDPKGR RRDPAGEAVD PRKKKGAAEA
   121  GRRKKAEAAA AAMATPARPG EAEDAAERPL QDEPAAAAGP GKGRFLVRIC FQGDEGACPT
   181  RDFVVGALIL RSIGMDPSDI YAVIQIPGSR EFDVSFRSAE KLALFLRVYE EKREQEDCWE
   241  NFVVLGRSKS SLKTLFILFR NETVDVEDIV TWLKRHCDVL AVPVKVTDRF GIWTGEYKCE
   301  IELRQGEGGV RHLPGAFFLG AERGYSWYKG QPKTCFKCGS RTHMSGSCTQ DRCFRCGEEG
   361  HLSPYCRKGI VCNLCGKRGH AFAQCPKAVH NSVAAQLTGV AGH

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against ZCCHC3 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): 0.47
Highest tissue expression: 22 nTPM

Expression across tissuesHPA

Tissue

thymus: 22 nTPM
placenta: 19 nTPM
ovary: 18 nTPM
spleen: 18 nTPM
bone marrow: 17 nTPM
lymph node: 17 nTPM

Single-cell type

cytotrophoblasts: 27 nCPM
erythrocyte progenitors: 26 nCPM
megakaryocytes: 25 nCPM
megakaryocyte progenitors: 23 nCPM
fallopian tube ciliated cells: 21 nCPM
retinal pigment epithelial cells: 21 nCPM

Immune cell

basophil: 2.5 nTPM
eosinophil: 2.2 nTPM
naive B-cell: 2.1 nTPM
plasmacytoid DC: 2.1 nTPM
memory B-cell: 1.7 nTPM
naive CD4 T-cell: 1.7 nTPM

Brain region

hypothalamus: 27 nTPM
choroid plexus: 19 nTPM
midbrain: 19 nTPM
cerebellum: 19 nTPM
pons: 18 nTPM
medulla oblongata: 17 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): 1.18
gnomAD pLI: 0.01
gnomAD missense Z: 1.41
DepMap mean gene effect: 0.08
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 11% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

cytoplasm

Protein domainsUniProt · Pfam · InterPro

Zinc finger, CCHC-type
Zinc finger, CCHC-type superfamily
Zinc knuckle
Zinc finger CCHC domain-containing protein 3
Zinc finger CCHC domain-containing protein 3, first RNA-binding domain
Zinc finger CCHC domain-containing protein 3, second RNA-binding domain
ZCCHC3, first RNA-binding domain
ZCCHC3, second RNA-binding domain

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of ZCCHC3 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 ZCCHC3 as an antibody target. Whether an autoantibody or antibody against ZCCHC3 could matter depends on whether native ZCCHC3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

ZCCHC3 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 ZCCHC3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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