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

Gene ID: 23352, updated on 4-Dec-2022

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; AllianceGenome:HGNC:30313
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
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Genomic context

See UBR4 in Genome Data Viewer
Location:
1p36.13
Exon count:
108
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (19074510..19210266, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (18898062..19033778, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (19401004..19536760, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376815 Neighboring gene Sharpr-MPRA regulatory region 2200 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
enables calmodulin binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
involved_in ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in centrosome IDA
Inferred from Direct Assay
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in ficolin-1-rich granule membrane TAS
Traceable Author Statement
more info
 
located_in membrane HDA PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in specific granule membrane TAS
Traceable Author Statement
more info
 
located_in 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_011539416.3
XP_011539417.3
XP_011539422.3
XP_016856311.3
XP_016856313.3
XP_016856315.3
XP_016856316.3
XP_016856317.3
XP_016856319.3
XP_047272414.1
XP_047272419.1
XP_047272420.1
XP_047272423.1
XP_047272424.1
XP_047272427.1
XP_047272431.1
XP_047272436.1
XP_047272437.1
XP_047272439.1
XP_047272440.1
XP_047272449.1
XP_047272450.1
XP_047272451.1
XP_047272453.1
XP_047272454.1
XP_047272455.1
XP_047272456.1
XP_047272457.1
XP_047272458.1
XP_047272459.1
XP_047272460.1
XP_047272461.1
XP_047272462.1
XP_047272463.1
XP_047272465.1
XP_047272466.1
XP_047272467.1
XP_047272468.1
XP_047272469.1
XP_047272470.1
XP_047272471.1
XP_047272472.1
XP_047272473.1
XP_047272474.1
XP_047272475.1
XP_047272476.1
XP_047272477.1
XP_047272478.1
XP_047272479.1

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_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, Q9UG82
    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 Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    19074510..19210266 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047416518.1XP_047272474.1  E3 ubiquitin-protein ligase UBR4 isoform X43

  2. XM_047416514.1XP_047272470.1  E3 ubiquitin-protein ligase UBR4 isoform X38

  3. XM_047416523.1XP_047272479.1  E3 ubiquitin-protein ligase UBR4 isoform X49

  4. XM_047416516.1XP_047272472.1  E3 ubiquitin-protein ligase UBR4 isoform X41

  5. XM_047416510.1XP_047272466.1  E3 ubiquitin-protein ligase UBR4 isoform X34

  6. XM_047416517.1XP_047272473.1  E3 ubiquitin-protein ligase UBR4 isoform X42

  7. XM_047416511.1XP_047272467.1  E3 ubiquitin-protein ligase UBR4 isoform X35

  8. XM_017000830.3XP_016856319.3  E3 ubiquitin-protein ligase UBR4 isoform X47

  9. XM_017000828.3XP_016856317.3  E3 ubiquitin-protein ligase UBR4 isoform X39

  10. XM_047416520.1XP_047272476.1  E3 ubiquitin-protein ligase UBR4 isoform X45

  11. XM_047416483.1XP_047272439.1  E3 ubiquitin-protein ligase UBR4 isoform X13

  12. XM_047416519.1XP_047272475.1  E3 ubiquitin-protein ligase UBR4 isoform X44

  13. XM_047416484.1XP_047272440.1  E3 ubiquitin-protein ligase UBR4 isoform X14

  14. XM_047416481.1XP_047272437.1  E3 ubiquitin-protein ligase UBR4 isoform X12

  15. XM_017000826.3XP_016856315.3  E3 ubiquitin-protein ligase UBR4 isoform X22

  16. XM_047416505.1XP_047272461.1  E3 ubiquitin-protein ligase UBR4 isoform X30

  17. XM_047416502.1XP_047272458.1  E3 ubiquitin-protein ligase UBR4 isoform X27

  18. XM_047416503.1XP_047272459.1  E3 ubiquitin-protein ligase UBR4 isoform X28

  19. XM_047416504.1XP_047272460.1  E3 ubiquitin-protein ligase UBR4 isoform X29

  20. XM_047416501.1XP_047272457.1  E3 ubiquitin-protein ligase UBR4 isoform X26

  21. XM_047416475.1XP_047272431.1  E3 ubiquitin-protein ligase UBR4 isoform X10

  22. XM_047416467.1XP_047272423.1  E3 ubiquitin-protein ligase UBR4 isoform X7

  23. XM_047416458.1XP_047272414.1  E3 ubiquitin-protein ligase UBR4 isoform X2

  24. XM_047416513.1XP_047272469.1  E3 ubiquitin-protein ligase UBR4 isoform X37

  25. XM_047416522.1XP_047272478.1  E3 ubiquitin-protein ligase UBR4 isoform X48

  26. XM_047416515.1XP_047272471.1  E3 ubiquitin-protein ligase UBR4 isoform X40

  27. XM_047416509.1XP_047272465.1  E3 ubiquitin-protein ligase UBR4 isoform X33

  28. XM_047416507.1XP_047272463.1  E3 ubiquitin-protein ligase UBR4 isoform X32

  29. XM_047416521.1XP_047272477.1  E3 ubiquitin-protein ligase UBR4 isoform X46

  30. XM_047416512.1XP_047272468.1  E3 ubiquitin-protein ligase UBR4 isoform X36

  31. XM_047416506.1XP_047272462.1  E3 ubiquitin-protein ligase UBR4 isoform X31

  32. XM_047416480.1XP_047272436.1  E3 ubiquitin-protein ligase UBR4 isoform X11

  33. XM_017000827.3XP_016856316.3  E3 ubiquitin-protein ligase UBR4 isoform X25

  34. XM_047416468.1XP_047272424.1  E3 ubiquitin-protein ligase UBR4 isoform X8

  35. XM_047416471.1XP_047272427.1  E3 ubiquitin-protein ligase UBR4 isoform X9

  36. XM_047416464.1XP_047272420.1  E3 ubiquitin-protein ligase UBR4 isoform X6

  37. XM_047416497.1XP_047272453.1  E3 ubiquitin-protein ligase UBR4 isoform X19

  38. XM_047416499.1XP_047272455.1  E3 ubiquitin-protein ligase UBR4 isoform X21

  39. XM_047416493.1XP_047272449.1  E3 ubiquitin-protein ligase UBR4 isoform X16

  40. XM_047416498.1XP_047272454.1  E3 ubiquitin-protein ligase UBR4 isoform X20

  41. XM_047416494.1XP_047272450.1  E3 ubiquitin-protein ligase UBR4 isoform X17

  42. XM_047416495.1XP_047272451.1  E3 ubiquitin-protein ligase UBR4 isoform X18

  43. XM_017000824.3XP_016856313.3  E3 ubiquitin-protein ligase UBR4 isoform X15

  44. XM_047416500.1XP_047272456.1  E3 ubiquitin-protein ligase UBR4 isoform X24

  45. XM_047416463.1XP_047272419.1  E3 ubiquitin-protein ligase UBR4 isoform X5

  46. XM_017000822.3XP_016856311.3  E3 ubiquitin-protein ligase UBR4 isoform X3

  47. XM_011541120.4XP_011539422.3  E3 ubiquitin-protein ligase UBR4 isoform X23

  48. XM_011541115.4XP_011539417.3  E3 ubiquitin-protein ligase UBR4 isoform X4

  49. XM_011541114.4XP_011539416.3  E3 ubiquitin-protein ligase UBR4 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    18898062..19033778 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)