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RAD23B RAD23 homolog B, nucleotide excision repair protein [ Homo sapiens (human) ]

Gene ID: 5887, updated on 13-Jan-2020

Summary

Official Symbol
RAD23Bprovided by HGNC
Official Full Name
RAD23 homolog B, nucleotide excision repair proteinprovided by HGNC
Primary source
HGNC:HGNC:9813
See related
Ensembl:ENSG00000119318 MIM:600062
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
P58; HR23B; HHR23B
Summary
The protein encoded by this gene is one of two human homologs of Saccharomyces cerevisiae Rad23, a protein involved in the nucleotide excision repair (NER). This protein was found to be a component of the protein complex that specifically complements the NER defect of xeroderma pigmentosum group C (XP-c) cell extracts in vitro. This protein was also shown to interact with, and elevate the nucleotide excision activity of 3-methyladenine-DNA glycosylase (MPG), which suggested a role in DNA damage recognition in base excision repair. This protein contains an N-terminal ubiquitin-like domain, which was reported to interact with 26S proteasome, and thus this protein may be involved in the ubiquitin mediated proteolytic pathway in cells. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Sep 2011]
Expression
Ubiquitous expression in liver (RPKM 44.7), fat (RPKM 43.3) and 25 other tissues See more
Orthologs

Genomic context

See RAD23B in Genome Data Viewer
Location:
9q31.2
Exon count:
12
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (107283279..107332194)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (110045517..110094475)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene importin subunit alpha-1 pseudogene Neighboring gene uncharacterized LOC107987110 Neighboring gene translation initiation factor IF-2-like Neighboring gene uncharacterized LOC107987111 Neighboring gene long intergenic non-protein coding RNA 1509 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 32

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study in Chinese men identifies two new prostate cancer risk loci at 9q31.2 and 19q13.4.
NHGRI GWA Catalog
Genome-wide association study of anthropometric traits and evidence of interactions with age and study year in Filipino women.
NHGRI GWA Catalog
Novel breast cancer susceptibility locus at 9q31.2: results of a genome-wide association study.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Screening in Jurkat T-cells with a short-hairpin-RNA (shRNA) library identifies RAD23 homolog B (RAD23B) is important for HIV-1 replication PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA polymerase II proximal promoter sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
damaged DNA binding IEA
Inferred from Electronic Annotation
more info
 
polyubiquitin modification-dependent protein binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
polyubiquitin modification-dependent protein binding IDA
Inferred from Direct Assay
more info
PubMed 
proteasome binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
single-stranded DNA binding TAS
Traceable Author Statement
more info
PubMed 
ubiquitin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
XPC complex IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus TAS
Traceable Author Statement
more info
PubMed 
proteasome complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
UV excision repair protein RAD23 homolog B
Names
RAD23, yeast homolog of, B
XP-C repair complementing complex 58 kDa
XP-C repair complementing protein
XP-C repair-complementing complex 58 kDa protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001244713.1NP_001231642.1  UV excision repair protein RAD23 homolog B isoform 2

    See identical proteins and their annotated locations for NP_001231642.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has a distinct 5' UTR and 5' CDS, compared to isoform (1), which results in an isoform (2) with a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AI375313, AK297986, AL137852, BI460482
    UniProtKB/TrEMBL
    B7Z4W4
    Conserved Domains (6) summary
    cd14377
    Location:168207
    UBA1_Rad23; UBA1 domain of Rad23 proteins found in metazoa
    cd14428
    Location:344388
    UBA2_HR23B; UBA2 domain of UV excision repair protein RAD23 homolog B (HR23B) found in vertebrates
    TIGR00601
    Location:2386
    rad23; UV excision repair protein Rad23
    pfam09280
    Location:255310
    XPC-binding; XPC-binding domain
    pfam12238
    Location:106149
    MSA-2c; Merozoite surface antigen 2c
    cl00155
    Location:257
    UBQ; Ubiquitin-like proteins
  2. NM_001244724.1NP_001231653.1  UV excision repair protein RAD23 homolog B isoform 3

    See identical proteins and their annotated locations for NP_001231653.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to isoform (1). The resulting isoform (3) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AI375313, AK297986, AL137852, AY313777
    Consensus CDS
    CCDS59138.1
    UniProtKB/Swiss-Prot
    P54727
    UniProtKB/TrEMBL
    B7Z4W4
    Related
    ENSP00000405623.2, ENST00000416373.6
    Conserved Domains (4) summary
    cd14377
    Location:117156
    UBA1_Rad23; UBA1 domain of Rad23 proteins found in metazoa
    cd14428
    Location:293337
    UBA2_HR23B; UBA2 domain of UV excision repair protein RAD23 homolog B (HR23B) found in vertebrates
    pfam09280
    Location:204259
    XPC-binding; XPC-binding domain
    pfam12238
    Location:5598
    MSA-2c; Merozoite surface antigen 2c
  3. NM_002874.5NP_002865.1  UV excision repair protein RAD23 homolog B isoform 1

    See identical proteins and their annotated locations for NP_002865.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AL137852, D21090, DC404422
    Consensus CDS
    CCDS6769.1
    UniProtKB/Swiss-Prot
    P54727
    Related
    ENSP00000350708.3, ENST00000358015.8
    Conserved Domains (6) summary
    cd01805
    Location:178
    RAD23_N; Ubiquitin-like domain of RAD23
    cd14377
    Location:189228
    UBA1_Rad23; UBA1 domain of Rad23 proteins found in metazoa
    cd14428
    Location:365409
    UBA2_HR23B; UBA2 domain of UV excision repair protein RAD23 homolog B (HR23B) found in vertebrates
    TIGR00601
    Location:1407
    rad23; UV excision repair protein Rad23
    pfam09280
    Location:276331
    XPC-binding; XPC-binding domain
    pfam12238
    Location:127170
    MSA-2c; Merozoite surface antigen 2c

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    107283279..107332194
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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