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UBR4 ubiquitin protein ligase E3 component n-recognin 4 [ Homo sapiens (human) ]

Gene ID: 23352, updated on 5-Apr-2020

Summary

Official Symbol
UBR4provided by HGNC
Official Full Name
ubiquitin protein ligase E3 component n-recognin 4provided by HGNC
Primary source
HGNC:HGNC:30313
See related
Ensembl:ENSG00000127481 MIM:609890
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
p600; ZUBR1; RBAF600
Summary
The protein encoded by this gene is an E3 ubiquitin-protein ligase that interacts with the retinoblastoma-associated protein in the nucleus and with calcium-bound calmodulin in the cytoplasm. The encoded protein appears to be a cytoskeletal component in the cytoplasm and part of the chromatin scaffold in the nucleus. In addition, this protein is a target of the human papillomavirus type 16 E7 oncoprotein. [provided by RefSeq, Aug 2010]
Expression
Ubiquitous expression in testis (RPKM 21.2), bone marrow (RPKM 14.0) and 25 other tissues See more
Orthologs

Genomic context

See UBR4 in Genome Data Viewer
Location:
1p36.13
Exon count:
108
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (19074508..19214332, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (19401000..19536812, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene intermediate filament family orphan 2 Neighboring gene Sharpr-MPRA regulatory regions 2400 and 6542 Neighboring gene uncharacterized LOC105376815 Neighboring gene EMC1 antisense RNA 1 Neighboring gene ER membrane protein complex subunit 1 Neighboring gene MRT4 homolog, ribosome maturation factor

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?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of ubiquitin protein ligase E3 component n-recognin 4 (UBR4) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Pol gag-pol HIV-1 Pol is identified to have a physical interaction with ubiquitin protein ligase E3 component n-recognin 4 (UBR4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
Rev rev HIV-1 Rev interacting protein, ubiquitin protein ligase E3 component n-recognin 4 (UBR4), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with UBR4 is increased by RRE PubMed
Vpr 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ41863, KIAA0462, KIAA1307

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calmodulin binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
neutrophil degranulation TAS
Traceable Author Statement
more info
 
protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
centrosome IDA
Inferred from Direct Assay
more info
 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
ficolin-1-rich granule membrane TAS
Traceable Author Statement
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
specific granule membrane TAS
Traceable Author Statement
more info
 
tertiary granule membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase UBR4
Names
N-recognin-4
RING-type E3 ubiquitin transferase UBR4
retinoblastoma-associated factor 600-like protein
retinoblastoma-associated factor of 600 kDa
zinc finger UBR1-type protein 1
NP_065816.2
XP_011539410.2
XP_011539411.2
XP_011539412.2
XP_011539413.2
XP_011539414.2
XP_011539415.2
XP_011539416.2
XP_011539417.2
XP_011539418.2
XP_011539419.2
XP_011539420.2
XP_011539421.2
XP_011539422.2
XP_011539423.2
XP_016856311.2
XP_016856312.2
XP_016856313.2
XP_016856314.2
XP_016856315.2
XP_016856316.2
XP_016856317.2
XP_016856318.2
XP_016856319.2

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.

Genomic

  1. NG_027669.1 RefSeqGene

    Range
    4987..140743
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_020765.3NP_065816.2  E3 ubiquitin-protein ligase UBR4

    See identical proteins and their annotated locations for NP_065816.2

    Status: REVIEWED

    Source sequence(s)
    AA748129, AB007931, AB037728, AF348492, AL137127, AL357564
    Consensus CDS
    CCDS189.1
    UniProtKB/Swiss-Prot
    Q5T4S7
    Related
    ENSP00000364403.3, ENST00000375254.8
    Conserved Domains (3) summary
    smart00396
    Location:16601727
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36603704
    DZR; Double zinc ribbon
    pfam13764
    Location:43675163
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    19074508..19214332 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000830.2XP_016856319.2  E3 ubiquitin-protein ligase UBR4 isoform X23

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36633707
    DZR; Double zinc ribbon
    pfam13764
    Location:43705166
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  2. XM_017000828.2XP_016856317.2  E3 ubiquitin-protein ligase UBR4 isoform X21

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36963740
    DZR; Double zinc ribbon
    pfam13764
    Location:44035199
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  3. XM_017000826.2XP_016856315.2  E3 ubiquitin-protein ligase UBR4 isoform X16

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37093753
    DZR; Double zinc ribbon
    pfam13764
    Location:44165212
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  4. XM_011541113.3XP_011539415.2  E3 ubiquitin-protein ligase UBR4 isoform X6

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37433787
    DZR; Double zinc ribbon
    pfam13764
    Location:44505246
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  5. XM_011541109.3XP_011539411.2  E3 ubiquitin-protein ligase UBR4 isoform X2

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37483792
    DZR; Double zinc ribbon
    pfam13764
    Location:44555251
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  6. XM_017000823.2XP_016856312.2  E3 ubiquitin-protein ligase UBR4 isoform X11

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37333777
    DZR; Double zinc ribbon
    pfam13764
    Location:44405236
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  7. XM_011541112.3XP_011539414.2  E3 ubiquitin-protein ligase UBR4 isoform X5

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37443788
    DZR; Double zinc ribbon
    pfam13764
    Location:44515247
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  8. XM_017000827.2XP_016856316.2  E3 ubiquitin-protein ligase UBR4 isoform X19

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37043748
    DZR; Double zinc ribbon
    pfam13764
    Location:44115207
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  9. XM_017000825.2XP_016856314.2  E3 ubiquitin-protein ligase UBR4 isoform X15

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37103754
    DZR; Double zinc ribbon
    pfam13764
    Location:44175213
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  10. XM_011541121.3XP_011539423.2  E3 ubiquitin-protein ligase UBR4 isoform X20

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36973741
    DZR; Double zinc ribbon
    pfam13764
    Location:44045200
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  11. XM_011541116.3XP_011539418.2  E3 ubiquitin-protein ligase UBR4 isoform X10

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37383782
    DZR; Double zinc ribbon
    pfam13764
    Location:44455241
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  12. XM_011541118.3XP_011539420.2  E3 ubiquitin-protein ligase UBR4 isoform X13

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37203764
    DZR; Double zinc ribbon
    pfam13764
    Location:44275223
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  13. XM_017000829.2XP_016856318.2  E3 ubiquitin-protein ligase UBR4 isoform X22

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:36803724
    DZR; Double zinc ribbon
    pfam13764
    Location:43875183
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  14. XM_017000824.2XP_016856313.2  E3 ubiquitin-protein ligase UBR4 isoform X14

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37153759
    DZR; Double zinc ribbon
    pfam13764
    Location:44225218
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  15. XM_011541117.3XP_011539419.2  E3 ubiquitin-protein ligase UBR4 isoform X12

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37213765
    DZR; Double zinc ribbon
    pfam13764
    Location:44285224
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  16. XM_011541110.3XP_011539412.2  E3 ubiquitin-protein ligase UBR4 isoform X3

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37483792
    DZR; Double zinc ribbon
    pfam13764
    Location:44555251
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  17. XM_017000822.2XP_016856311.2  E3 ubiquitin-protein ligase UBR4 isoform X8

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37423786
    DZR; Double zinc ribbon
    pfam13764
    Location:44495245
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  18. XM_011541111.3XP_011539413.2  E3 ubiquitin-protein ligase UBR4 isoform X4

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37483792
    DZR; Double zinc ribbon
    pfam13764
    Location:44555251
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  19. XM_011541120.3XP_011539422.2  E3 ubiquitin-protein ligase UBR4 isoform X18

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37083752
    DZR; Double zinc ribbon
    pfam13764
    Location:44155211
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  20. XM_011541115.3XP_011539417.2  E3 ubiquitin-protein ligase UBR4 isoform X9

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37413785
    DZR; Double zinc ribbon
    pfam13764
    Location:44485244
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  21. XM_011541114.3XP_011539416.2  E3 ubiquitin-protein ligase UBR4 isoform X7

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37433787
    DZR; Double zinc ribbon
    pfam13764
    Location:44505246
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  22. XM_011541108.3XP_011539410.2  E3 ubiquitin-protein ligase UBR4 isoform X1

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37493793
    DZR; Double zinc ribbon
    pfam13764
    Location:44565252
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
  23. XM_011541119.3XP_011539421.2  E3 ubiquitin-protein ligase UBR4 isoform X17

    Conserved Domains (3) summary
    smart00396
    Location:16981765
    ZnF_UBR1; Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway
    pfam12773
    Location:37493793
    DZR; Double zinc ribbon
    pfam13764
    Location:44565212
    E3_UbLigase_R4; E3 ubiquitin-protein ligase UBR4
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