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UBR5 ubiquitin protein ligase E3 component n-recognin 5 [ Homo sapiens (human) ]

Gene ID: 51366, updated on 7-Apr-2024

Summary

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Official Symbol
UBR5provided by HGNC
Official Full Name
ubiquitin protein ligase E3 component n-recognin 5provided by HGNC
Primary source
HGNC:HGNC:16806
See related
Ensembl:ENSG00000104517 MIM:608413; AllianceGenome:HGNC:16806
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
DD5; EDD; HYD; EDD1
Summary
This gene encodes a progestin-induced protein, which belongs to the HECT (homology to E6-AP carboxyl terminus) family. The HECT family proteins function as E3 ubiquitin-protein ligases, targeting specific proteins for ubiquitin-mediated proteolysis. This gene is localized to chromosome 8q22 which is disrupted in a variety of cancers. This gene potentially has a role in regulation of cell proliferation or differentiation. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 18.7), lymph node (RPKM 11.2) and 25 other tissues See more
Orthologs
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Genomic context

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See UBR5 in Genome Data Viewer
Location:
8q22.3
Exon count:
60
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (102252273..102412700, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (103378173..103538611, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (103264501..103424928, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:103240735-103241235 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:103243938-103244157 Neighboring gene ribonucleotide reductase regulatory TP53 inducible subunit M2B Neighboring gene MED14-independent group 3 enhancer GRCh37_chr8:103248510-103249709 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27747 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27748 Neighboring gene SUMO2 pseudogene 19 Neighboring gene UBR5 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27749 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27750 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:103329370-103329870 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:103335870-103336617 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27751 Neighboring gene uncharacterized LOC124902086 Neighboring gene Sharpr-MPRA regulatory region 4694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27752 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27753 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103423320-103424098 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103424099-103424877 Neighboring gene uncharacterized LOC105375683 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19440 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27755 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27756 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27757 Neighboring gene RNA, U6atac small nuclear 8, pseudogene Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103446806-103447531 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:103447532-103448256 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:103449587-103450136 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:103450137-103450684 Neighboring gene heat shock protein family E (Hsp10) member 1 pseudogene 14

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Structure of the human UBR5 E3 ubiquitin ligase. Wang F, et al. Structure, 2023 May 4. PMID 37040767, Free PMC Article
  2. Clinicopathological Features and Prognostic Evaluation of UBR5 in Liver Cancer Patients. Huo Q, et al. Pathol Oncol Res, 2022. PMID 36388433, Free PMC Article
  3. UBR5 promotes migration and invasion of glioma cells by regulating the ECRG4/NF-ҡB pathway. Wu Q, et al. J Biosci, 2022. PMID 36226349
  4. UBR5 promotes tumor immune evasion through enhancing IFN-γ-induced PDL1 transcription in triple negative breast cancer. Wu B, et al. Theranostics, 2022. PMID 35836797, Free PMC Article
  5. BoxCar and shotgun proteomic analyses reveal molecular networks regulated by UBR5 in prostate cancer. Yan Y, et al. Proteomics, 2022 Feb. PMID 34897998, Free PMC Article

See all (255) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Spermatid perinuclear RNA-binding protein promotes UBR5-mediated proteolysis of Dicer to accelerate triple-negative breast cancer progression.
    Title: Spermatid perinuclear RNA-binding protein promotes UBR5-mediated proteolysis of Dicer to accelerate triple-negative breast cancer progression.
  2. The role of UBR5 in tumor proliferation and oncotherapy.
    Title: The role of UBR5 in tumor proliferation and oncotherapy.
  3. Structural snapshots along K48-linked ubiquitin chain formation by the HECT E3 UBR5.
    Title: Structural snapshots along K48-linked ubiquitin chain formation by the HECT E3 UBR5.
  4. Targeting UBR5 inhibits postsurgical breast cancer lung metastases by inducing CDC73 and p53 mediated apoptosis.
    Title: Targeting UBR5 inhibits postsurgical breast cancer lung metastases by inducing CDC73 and p53 mediated apoptosis.
  5. The role and molecular mechanism of metabolic reprogramming of colorectal cancer by UBR5 through PYK2 regulation of OXPHOS expression study.
    Title: The role and molecular mechanism of metabolic reprogramming of colorectal cancer by UBR5 through PYK2 regulation of OXPHOS expression study.
  6. Cryo-EM structure of the chain-elongating E3 ubiquitin ligase UBR5.
    Title: Cryo-EM structure of the chain-elongating E3 ubiquitin ligase UBR5.
  7. UBR5 forms ligand-dependent complexes on chromatin to regulate nuclear hormone receptor stability.
    Title: UBR5 forms ligand-dependent complexes on chromatin to regulate nuclear hormone receptor stability.
  8. Orphan quality control shapes network dynamics and gene expression.
    Title: Orphan quality control shapes network dynamics and gene expression.
  9. Structure of the human UBR5 E3 ubiquitin ligase.
    Title: Structure of the human UBR5 E3 ubiquitin ligase.
  10. Clinicopathological Features and Prognostic Evaluation of UBR5 in Liver Cancer Patients.
    Title: Clinicopathological Features and Prognostic Evaluation of UBR5 in Liver Cancer Patients.
Submit: New GeneRIF Correction See all GeneRIFs (73)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of ubiquitin protein ligase E3 component n-recognin 5 (UBR5) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Vpr vpr The interaction of HIV-1 Vpr with the EDVP E3 ligase complex (EDD, DDB1, and VPRBP) promotes Vpr-mediated downregulation of TERT protein PubMed
vpr The interaction of Vpr with DDB1 facilitates the formation of complexes containing Cul4A-Roc1 E3 ubiquitin ligase. The association of Vpr with DDB1-containing E3 ligase mediates the degradation of UNG2 and SMUG1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ11310, KIAA0896, MGC57263

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ubiquitin-ubiquitin ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin-ubiquitin ligase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in DNA repair-dependent chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in heterochromatin boundary formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of gene expression IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of protein import into nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in progesterone receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein K48-linked ubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein polyubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in membrane HDA PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
E3 ubiquitin-protein ligase UBR5
Names
E3 identified by differential display
E3 ubiquitin-protein ligase, HECT domain-containing 1
HECT-type E3 ubiquitin transferase UBR5
hyperplastic discs protein homolog
progestin-induced protein
NP_001269802.1
NP_056986.2
XP_005251019.1
XP_024302946.1
XP_024302947.1
XP_047277803.1
XP_047277804.1
XP_047277805.1
XP_054216598.1
XP_054216599.1
XP_054216600.1
XP_054216601.1
XP_054216602.1
XP_054216603.1

NCBI Reference Sequences (RefSeq)

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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.

Genomic

  1. NG_047152.1 RefSeqGene

    Range
    4990..165417
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001282873.2 → NP_001269802.1  E3 ubiquitin-protein ligase UBR5 isoform 2

    See identical proteins and their annotated locations for NP_001269802.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AB020703, AL833555, AP002907, AP002981, BC037843
    Consensus CDS
    CCDS64946.1
    UniProtKB/Swiss-Prot
    O95071
    Related
    ENSP00000220959.4, ENST00000220959.8
    Conserved Domains (4) summary
    smart00517
    Location:2389 → 2452
    PolyA; C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein
    smart00119
    Location:2500 → 2795
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd14423
    Location:184 → 230
    CUE_UBR5; CUE domain found in E3 ubiquitin-protein ligase UBR5 and similar proteins
    cd19675
    Location:1171 → 1246
    UBR-box_UBR5; UBR-box found in HECT-type E3 ubiquitin-protein ligase UBR5 and similar proteins

  2. NM_015902.6 → NP_056986.2  E3 ubiquitin-protein ligase UBR5 isoform 1

    See identical proteins and their annotated locations for NP_056986.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AB020703, AP002907, AP002981, BX489192
    Consensus CDS
    CCDS34933.1
    UniProtKB/Swiss-Prot
    B2RP24, J3KMW7, O94970, O95071, Q9NPL3
    Related
    ENSP00000429084.1, ENST00000520539.6
    Conserved Domains (4) summary
    smart00396
    Location:1177 → 1244
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    smart00517
    Location:2389 → 2452
    PolyA; C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein
    smart00119
    Location:2501 → 2796
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd14423
    Location:184 → 230
    CUE_UBR5; CUE domain found in E3 ubiquitin-protein ligase UBR5 and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    102252273..102412700 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047421849.1 → XP_047277805.1  E3 ubiquitin-protein ligase UBR5 isoform X5

  2. XM_047421848.1 → XP_047277804.1  E3 ubiquitin-protein ligase UBR5 isoform X4

  3. XM_024447179.2 → XP_024302947.1  E3 ubiquitin-protein ligase UBR5 isoform X3

    Conserved Domains (3) summary
    smart00396
    Location:923 → 990
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    smart00517
    Location:2137 → 2200
    PolyA; C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein
    smart00119
    Location:2249 → 2544
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with

  4. XM_047421847.1 → XP_047277803.1  E3 ubiquitin-protein ligase UBR5 isoform X2

  5. XM_024447178.2 → XP_024302946.1  E3 ubiquitin-protein ligase UBR5 isoform X1

    Conserved Domains (3) summary
    smart00396
    Location:929 → 996
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    smart00517
    Location:2143 → 2206
    PolyA; C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein
    smart00119
    Location:2255 → 2550
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with

  6. XM_005250962.6 → XP_005251019.1  E3 ubiquitin-protein ligase UBR5 isoform X6

    Conserved Domains (4) summary
    smart00396
    Location:187 → 254
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    smart00517
    Location:1401 → 1464
    PolyA; C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein
    smart00119
    Location:1513 → 1808
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    pfam00632
    Location:1513 → 1811
    HECT; HECT-domain (ubiquitin-transferase)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    103378173..103538611 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054360627.1 → XP_054216602.1  E3 ubiquitin-protein ligase UBR5 isoform X5

  2. XM_054360626.1 → XP_054216601.1  E3 ubiquitin-protein ligase UBR5 isoform X4

  3. XM_054360625.1 → XP_054216600.1  E3 ubiquitin-protein ligase UBR5 isoform X3

  4. XM_054360624.1 → XP_054216599.1  E3 ubiquitin-protein ligase UBR5 isoform X2

  5. XM_054360623.1 → XP_054216598.1  E3 ubiquitin-protein ligase UBR5 isoform X1

  6. XM_054360628.1 → XP_054216603.1  E3 ubiquitin-protein ligase UBR5 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O95071.2 GenPept UniProtKB/Swiss-Prot:O95071

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