Seroatlas · Human Serome Atlas

RFX3

Transcription factor RFX3

Also known as: RFX3_HUMAN

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

Protein identityUniProt · HPA

UniProt accession
P48380
Gene
RFX3
Ensembl
ENSG00000080298
Chromosome
9
Canonical length
749 aa
Protein class
Predicted intracellular proteins, Transcription factors
Subcellular location
Nucleoplasm,Vesicles,Cytosol

OverviewNCBI Gene

This gene is a member of the regulatory factor X gene family, which encodes transcription factors that contain a highly-conserved winged helix DNA binding domain. The protein encoded by this gene is structurally related to regulatory factors X1, X2, X4, and X5. It is a transcriptional activator that can bind DNA as a monomer or as a heterodimer with other RFX family members. Multiple transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Aug 2013]

Canonical amino-acid sequenceUniProt

749 residues, UniProt reviewed canonical sequence.

>P48380|RFX3
     1  MQTSETGSDT GSTVTLQTSV ASQAAVPTQV VQQVPVQQQV QQVQTVQQVQ HVYPAQVQYV
    61  EGSDTVYTNG AIRTTTYPYT ETQMYSQNTG GNYFDTQGSS AQVTTVVSSH SMVGTGGIQM
   121  GVTGGQLISS SGGTYLIGNS MENSGHSVTH TTRASPATIE MAIETLQKSD GLSTHRSSLL
   181  NSHLQWLLDN YETAEGVSLP RSTLYNHYLR HCQEHKLDPV NAASFGKLIR SIFMGLRTRR
   241  LGTRGNSKYH YYGIRVKPDS PLNRLQEDMQ YMAMRQQPMQ QKQRYKPMQK VDGVADGFTG
   301  SGQQTGTSVE QTVIAQSQHH QQFLDASRAL PEFGEVEISS LPDGTTFEDI KSLQSLYREH
   361  CEAILDVVVN LQFSLIEKLW QTFWRYSPST PTDGTTITES SNLSEIESRL PKAKLITLCK
   421  HESILKWMCN CDHGMYQALV EILIPDVLRP IPSALTQAIR NFAKSLEGWL SNAMNNIPQR
   481  MIQTKVAAVS AFAQTLRRYT SLNHLAQAAR AVLQNTSQIN QMLSDLNRVD FANVQEQASW
   541  VCQCDDNMVQ RLETDFKMTL QQQSTLEQWA AWLDNVMMQA LKPYEGRPSF PKAARQFLLK
   601  WSFYSSMVIR DLTLRSAASF GSFHLIRLLY DEYMFYLVEH RVAQATGETP IAVMGEFGDL
   661  NAVSPGNLDK DEGSEVESEM DEELDDSSEP QAKREKTELS QAFPVGCMQP VLETGVQPSL
   721  LNPIHSEHIV TSTQTIRQCS ATGNTYTAV

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against RFX3 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)
0.45
Highest tissue expression
20 nTPM

Expression across tissuesHPA

Tissue

  • testis: 20 nTPM
  • fallopian tube: 11 nTPM
  • retina: 8.3 nTPM
  • choroid plexus: 6.1 nTPM
  • bone marrow: 5.9 nTPM
  • thymus: 5.9 nTPM

Single-cell type

  • ependymal cells: 2,321 nCPM
  • respiratory ciliated cells: 1,765 nCPM
  • choroid plexus epithelial cells: 1,559 nCPM
  • neuroendocrine cells: 853 nCPM
  • endometrial ciliated cells: 852 nCPM
  • fallopian tube ciliated cells: 795 nCPM

Immune cell

  • T-reg: 7.2 nTPM
  • neutrophil: 6.1 nTPM
  • gdT-cell: 5.9 nTPM
  • memory CD4 T-cell: 5.3 nTPM
  • naive B-cell: 5.2 nTPM
  • eosinophil: 4.7 nTPM

Brain region

  • choroid plexus: 129 nTPM
  • cerebral cortex: 106 nTPM
  • hippocampal formation: 99 nTPM
  • midbrain: 89 nTPM
  • cerebellum: 87 nTPM
  • spinal cord: 81 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about RFX3.

Disease | GeneticClinVar

12 pathogenic / likely-pathogenic of 153 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

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)
0.1
gnomAD pLI
1
gnomAD missense Z
3.47
DepMap mean gene effect
0.08
DepMap dependency class
none

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 RFX3 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 RFX3 as an antibody target. Whether an autoantibody or antibody against RFX3 could matter depends on whether native RFX3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

RFX3 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 RFX3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/RFX3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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