APOBEC3B

Protein identityUniProt · HPA

UniProt accession

Q9UH17

Gene

APOBEC3B

Ensembl

ENSG00000179750

Chromosome

22

Canonical length

382 aa

Protein class

Cancer-related genes, Enzymes, Predicted intracellular proteins

Subcellular location

Nucleoplasm

Quaternary structure

Homodimer

OverviewNCBI Gene

This gene is a member of the cytidine deaminase gene family. It is one of seven related genes or pseudogenes found in a cluster, thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1. It is thought that the proteins may be RNA editing enzymes and have roles in growth or cell cycle control. A hybrid gene results from the deletion of approximately 29.5 kb of sequence between this gene, APOBEC3B, and the adjacent gene APOBEC3A. The breakpoints of the deletion are within the two genes, so the deletion allele is predicted to have the promoter and coding region of APOBEC3A, but the 3' UTR of APOBEC3B. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2012]

Canonical amino-acid sequenceUniProt

382 residues, UniProt reviewed canonical sequence.

>Q9UH17|APOBEC3B
     1  MNPQIRNPME RMYRDTFYDN FENEPILYGR SYTWLCYEVK IKRGRSNLLW DTGVFRGQVY
    61  FKPQYHAEMC FLSWFCGNQL PAYKCFQITW FVSWTPCPDC VAKLAEFLSE HPNVTLTISA
   121  ARLYYYWERD YRRALCRLSQ AGARVTIMDY EEFAYCWENF VYNEGQQFMP WYKFDENYAF
   181  LHRTLKEILR YLMDPDTFTF NFNNDPLVLR RRQTYLCYEV ERLDNGTWVL MDQHMGFLCN
   241  EAKNLLCGFY GRHAELRFLD LVPSLQLDPA QIYRVTWFIS WSPCFSWGCA GEVRAFLQEN
   301  THVRLRIFAA RIYDYDPLYK EALQMLRDAG AQVSIMTYDE FEYCWDTFVY RQGCPFQPWD
   361  GLEEHSQALS GRLRAILQNQ GN

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against APOBEC3B 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)

0.27

Highest tissue expression

27 nTPM

Expression across tissuesHPA

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)

1.36

gnomAD pLI

0

gnomAD missense Z

0.52

DepMap mean gene effect

0.01

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

• clearance of foreign intracellular DNA
• cytidine to uridine editing
• defense response to virus
• DNA cytosine deamination
• innate immune response
• negative regulation of single stranded viral RNA replication via double stranded DNA intermediate
• transposable element silencing

Molecular functions

• cytidine deaminase activity
• RNA binding
• zinc ion binding

Cellular components

• cytoplasm
• nucleoplasm
• nucleus
• P-body

Protein domainsUniProt · Pfam · InterPro

• Cytidine and deoxycytidylate deaminase domain
• APOBEC/CMP deaminase, zinc-binding
• Cytidine deaminase-like
• APOBEC Cytidine Deaminase
• APOBEC3, cytosine deaminase domain

KeywordsUniProt

• Antiviral defense
• Hydrolase
• Immunity
• Innate immunity
• Metal-binding
• Nucleus
• Repeat
• RNA-binding
• Zinc

InteractionsUniProt · HPA

Protein binding partners of APOBEC3B in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

• APOBEC3G