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    UBR2 ubiquitin protein ligase E3 component n-recognin 2 [ Homo sapiens (human) ]

    Gene ID: 23304, updated on 10-Dec-2024

    Summary

    Official Symbol
    UBR2provided by HGNC
    Official Full Name
    ubiquitin protein ligase E3 component n-recognin 2provided by HGNC
    Primary source
    HGNC:HGNC:21289
    See related
    Ensembl:ENSG00000024048 MIM:609134; AllianceGenome:HGNC:21289
    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
    C6orf133; bA49A4.1; dJ242G1.1; dJ392M17.3
    Summary
    Enables L-leucine binding activity and ubiquitin protein ligase activity. Involved in several processes, including cellular response to L-leucine; protein K63-linked ubiquitination; and regulation of signal transduction. Predicted to be located in cytosol. Predicted to be part of chromatin and ubiquitin ligase complex. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 7.8), spleen (RPKM 6.8) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See UBR2 in Genome Data Viewer
    Location:
    6p21.1
    Exon count:
    52
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (42564029..42693505)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (42392486..42521935)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (42531767..42661243)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24556 Neighboring gene uncharacterized LOC124901317 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24557 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24558 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24559 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17205 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24560 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24561 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:42571822-42572008 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24562 Neighboring gene RNA, U6 small nuclear 890, pseudogene Neighboring gene MPRA-validated peak5809 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:42677933-42678518 Neighboring gene peripherin 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24563 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24564 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24565 Neighboring gene ATPase H+ transporting V0 subunit c pseudogene 3

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (13 hits/1314 screens)

    EBI GWAS Catalog

    Description
    Genome-wide association study of smoking behaviours among Bangladeshi adults.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    HIV-1 interactions

    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 2 (UBR2) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
    Vif vif HIV-1 Vif is identified to have a physical interaction with ubiquitin protein ligase E3 component n-recognin 2 (UBR2) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses 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

    General gene information

    Clone Names

    • FLJ36357, KIAA0349, MGC71112, DKFZp686C08114

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables L-leucine binding PubMed 
    enables histone H2A ubiquitin ligase activity  
    enables protein binding PubMed 
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity PubMed 
    enables zinc ion binding  
    Process Evidence Code Pubs
    involved_in cellular response to L-leucine PubMed 
    involved_in heterochromatin formation  
    involved_in male meiosis I  
    involved_in male meiotic nuclear division  
    involved_in negative regulation of TOR signaling PubMed 
    involved_in positive regulation of T cell receptor signaling pathway PubMed 
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process PubMed 
    involved_in protein K63-linked ubiquitination PubMed 
    involved_in protein ubiquitination  
    involved_in reciprocal meiotic recombination  
    involved_in spermatogenesis  
    involved_in transposable element silencing  
    involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway  
    involved_in ubiquitin-dependent protein catabolic process via the N-end rule pathway PubMed 
    Component Evidence Code Pubs
    located_in chromatin  
    is_active_in cytoplasm  
    is_active_in cytoplasm PubMed 
    located_in cytosol  
    located_in nucleus  
    part_of ubiquitin ligase complex  

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase UBR2
    Names
    RING-type E3 ubiquitin transferase UBR2
    ubiquitin-protein ligase E3-alpha-2
    ubiquitin-protein ligase E3-alpha-II
    NP_001171730.1
    NP_001350634.1
    NP_056070.1
    XP_005249023.1
    XP_011512740.2
    XP_011512742.1
    XP_011512743.1
    XP_016866083.1
    XP_016866086.1
    XP_047274449.1
    XP_047274450.1
    XP_047274451.1
    XP_054210833.1
    XP_054210834.1
    XP_054210835.1
    XP_054210836.1
    XP_054210837.1
    XP_054210838.1
    XP_054210839.1
    XP_054210840.1
    XP_054210841.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001184801.2 → NP_001171730.1  E3 ubiquitin-protein ligase UBR2 isoform 2

      See identical proteins and their annotated locations for NP_001171730.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 3' coding region and 3' UTR, compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AL136223, AL391814, BC024217, DR003057
      Consensus CDS
      CCDS55001.1
      UniProtKB/Swiss-Prot
      Q8IWV8
      Related
      ENSP00000361994.2, ENST00000372903.6
      Conserved Domains (2) summary
      pfam02207
      Location:99 → 166
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam02617
      Location:222 → 301
      ClpS; ATP-dependent Clp protease adaptor protein ClpS
    2. NM_001363705.2 → NP_001350634.1  E3 ubiquitin-protein ligase UBR2 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon and contains another alternate in-frame exon of the same size compared to variant 1. The resulting isoform (3) is the same size but has an alternate internal sequence compared to isoform 1.
      Source sequence(s)
      AL049843, AL136223, AL391814
      Consensus CDS
      CCDS87404.1
      Related
      ENSP00000361992.1, ENST00000372901.2
      Conserved Domains (3) summary
      pfam02207
      Location:99 → 166
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam02617
      Location:222 → 301
      ClpS; ATP-dependent Clp protease adaptor protein ClpS
      cd16686
      Location:1107 → 1222
      RING-H2_UBR2; RING finger, H2 subclass, found in ubiquitin-protein ligase E3-alpha-2 (UBR2) and similar proteins
    3. NM_015255.3 → NP_056070.1  E3 ubiquitin-protein ligase UBR2 isoform 1

      See identical proteins and their annotated locations for NP_056070.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK127310, AL049843, AL136223, AY061884, DR003057
      Consensus CDS
      CCDS4870.1
      UniProtKB/Swiss-Prot
      O15057, Q4VXK2, Q5TFH6, Q6P2I2, Q6ZUD0, Q8IWV8
      Related
      ENSP00000361990.1, ENST00000372899.6
      Conserved Domains (2) summary
      pfam02207
      Location:99 → 166
      zf-UBR; Putative zinc finger in N-recognin (UBR box)
      pfam02617
      Location:222 → 300
      ClpS; ATP-dependent Clp protease adaptor protein ClpS

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      42564029..42693505
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017010594.2 → XP_016866083.1  E3 ubiquitin-protein ligase UBR2 isoform X2

    2. XM_011514438.3 → XP_011512740.2  E3 ubiquitin-protein ligase UBR2 isoform X1

    3. XM_047418493.1 → XP_047274449.1  E3 ubiquitin-protein ligase UBR2 isoform X3

    4. XM_017010597.2 → XP_016866086.1  E3 ubiquitin-protein ligase UBR2 isoform X4

    5. XM_047418494.1 → XP_047274450.1  E3 ubiquitin-protein ligase UBR2 isoform X7

    6. XM_047418495.1 → XP_047274451.1  E3 ubiquitin-protein ligase UBR2 isoform X9

    7. XM_011514440.2 → XP_011512742.1  E3 ubiquitin-protein ligase UBR2 isoform X5

      See identical proteins and their annotated locations for XP_011512742.1

      UniProtKB/TrEMBL
      B4E215
      Conserved Domains (1) summary
      cl17238
      Location:611 → 726
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    8. XM_011514441.3 → XP_011512743.1  E3 ubiquitin-protein ligase UBR2 isoform X6

      UniProtKB/TrEMBL
      B4E215
      Conserved Domains (1) summary
      cl17238
      Location:591 → 706
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    9. XM_005248966.4 → XP_005249023.1  E3 ubiquitin-protein ligase UBR2 isoform X8

      Conserved Domains (1) summary
      cl17238
      Location:404 → 519
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      42392486..42521935
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054354858.1 → XP_054210833.1  E3 ubiquitin-protein ligase UBR2 isoform X1

    2. XM_054354860.1 → XP_054210835.1  E3 ubiquitin-protein ligase UBR2 isoform X3

    3. XM_054354861.1 → XP_054210836.1  E3 ubiquitin-protein ligase UBR2 isoform X4

    4. XM_054354864.1 → XP_054210839.1  E3 ubiquitin-protein ligase UBR2 isoform X7

    5. XM_054354859.1 → XP_054210834.1  E3 ubiquitin-protein ligase UBR2 isoform X2

    6. XM_054354866.1 → XP_054210841.1  E3 ubiquitin-protein ligase UBR2 isoform X9

    7. XM_054354862.1 → XP_054210837.1  E3 ubiquitin-protein ligase UBR2 isoform X5

      UniProtKB/TrEMBL
      B4E215
    8. XM_054354863.1 → XP_054210838.1  E3 ubiquitin-protein ligase UBR2 isoform X6

      UniProtKB/TrEMBL
      B4E215
    9. XM_054354865.1 → XP_054210840.1  E3 ubiquitin-protein ligase UBR2 isoform X8

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