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    Herc2 HECT and RLD domain containing E3 ubiquitin protein ligase 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308669, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Herc2provided by RGD
    Official Full Name
    HECT and RLD domain containing E3 ubiquitin protein ligase 2provided by RGD
    Primary source
    RGD:1307989
    See related
    Ensembl:ENSRNOG00000013718 AllianceGenome:RGD:1307989
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable SUMO binding activity; ubiquitin protein ligase activity; and ubiquitin protein ligase binding activity. Predicted to be involved in cellular response to DNA damage stimulus; proteasome-mediated ubiquitin-dependent protein catabolic process; and protein ubiquitination. Predicted to act upstream of or within spermatogenesis. Predicted to be located in cytosol; nucleus; and plasma membrane. Predicted to be active in cytoplasm and membrane. Human ortholog(s) of this gene implicated in autosomal recessive non-syndromic intellectual disability and pigmentation disease. Orthologous to human HERC2 (HECT and RLD domain containing E3 ubiquitin protein ligase 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 274.6), Spleen (RPKM 238.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    1q22
    Exon count:
    96
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (116009681..116243888)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (106904789..107110997)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (114453033..114653787)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene NIPA magnesium transporter 1 Neighboring gene uncharacterized LOC108348727 Neighboring gene uncharacterized LOC134483328 Neighboring gene NIPA magnesium transporter 2 Neighboring gene DNA methyltransferase 3 alpha, pseudogene 3 Neighboring gene OCA2 melanosomal transmembrane protein Neighboring gene DNA polymerase epsilon 3, accessory subunit, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Abnormal spermiogenesis in two pink-eyed sterile mutants in the mouse. Hunt DM, et al. J Embryol Exp Morphol, 1971 Aug. PMID 5565073
    2. Circadian control of XPA and excision repair of cisplatin-DNA damage by cryptochrome and HERC2 ubiquitin ligase. Kang TH, et al. Proc Natl Acad Sci U S A, 2010 Mar 16. PMID 20304803, Free PMC Article
    3. DNA damage-inducible SUMOylation of HERC2 promotes RNF8 binding via a novel SUMO-binding Zinc finger. Danielsen JR, et al. J Cell Biol, 2012 Apr 16. PMID 22508508, Free PMC Article
    4. RNF8/UBC13 ubiquitin signaling suppresses synapse formation in the mammalian brain. Valnegri P, et al. Nat Commun, 2017 Nov 2. PMID 29097665, Free PMC Article
    5. Loss of the proteostasis factor AIRAPL causes myeloid transformation by deregulating IGF-1 signaling. Osorio FG, et al. Nat Med, 2016 Jan. PMID 26692333

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SUMO binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of Notch signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase HERC2
    Names
    hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 2
    hect domain and RLD 2
    probable E3 ubiquitin-protein ligase HERC2
    NP_001100990.1
    XP_006229362.1
    XP_006229363.1
    XP_006229364.1
    XP_006229366.1
    XP_038968546.1
    XP_038968557.1
    XP_063118514.1
    XP_063118525.1

    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.

    mRNA and Protein(s)

    1. NM_001107520.1 → NP_001100990.1  E3 ubiquitin-protein ligase HERC2

      See identical proteins and their annotated locations for NP_001100990.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474036
      UniProtKB/TrEMBL
      A6KD34, D4ACN3
      Related
      ENSRNOP00000019245.7, ENSRNOT00000019245.7
      Conserved Domains (10) summary
      cd08664
      Location:2709 → 2854
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      smart00119
      Location:4409 → 4735
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:4366 → 4737
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2650 → 2694
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2404 → 2451
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1153 → 1226
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam00415
      Location:621 → 670
      RCC1; Regulator of chromosome condensation (RCC1) repeat
      pfam06701
      Location:1814 → 1873
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2498 → 2575
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13540
      Location:3984 → 4014
      RCC1_2; Regulator of chromosome condensation (RCC1) repeat

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      116009681..116243888
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262444.1 → XP_063118514.1  E3 ubiquitin-protein ligase HERC2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JUC9

    2. XM_006229300.5 → XP_006229362.1  E3 ubiquitin-protein ligase HERC2 isoform X1

      See identical proteins and their annotated locations for XP_006229362.1

      UniProtKB/TrEMBL
      A0A0G2JUC9, D4ACN3
      Conserved Domains (9) summary
      cd08664
      Location:2766 → 2911
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      COG5184
      Location:2957 → 3323
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:4423 → 4794
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2707 → 2751
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2461 → 2508
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1212 → 1283
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam06701
      Location:1871 → 1931
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2555 → 2632
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam18346
      Location:2640 → 2697
      SH3_15; Mind bomb SH3 repeat domain

    3. XM_006229304.5 → XP_006229366.1  E3 ubiquitin-protein ligase HERC2 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZVG1, D4ACN3
      Related
      ENSRNOP00000083202.1
      Conserved Domains (10) summary
      cd08664
      Location:2766 → 2911
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      smart00119
      Location:4430 → 4756
      HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
      cd00078
      Location:4387 → 4758
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2707 → 2751
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2461 → 2508
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1210 → 1283
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam00415
      Location:676 → 725
      RCC1; Regulator of chromosome condensation (RCC1) repeat
      pfam06701
      Location:1871 → 1930
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2555 → 2632
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam13540
      Location:4005 → 4035
      RCC1_2; Regulator of chromosome condensation (RCC1) repeat

    4. XM_063262455.1 → XP_063118525.1  E3 ubiquitin-protein ligase HERC2 isoform X4

    5. XM_006229301.5 → XP_006229363.1  E3 ubiquitin-protein ligase HERC2 isoform X1

      See identical proteins and their annotated locations for XP_006229363.1

      UniProtKB/TrEMBL
      A0A0G2JUC9, D4ACN3
      Conserved Domains (9) summary
      cd08664
      Location:2766 → 2911
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      COG5184
      Location:2957 → 3323
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:4423 → 4794
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2707 → 2751
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2461 → 2508
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1212 → 1283
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam06701
      Location:1871 → 1931
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2555 → 2632
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam18346
      Location:2640 → 2697
      SH3_15; Mind bomb SH3 repeat domain

    6. XM_039112618.2 → XP_038968546.1  E3 ubiquitin-protein ligase HERC2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JUC9, D4ACN3
      Conserved Domains (9) summary
      cd08664
      Location:2766 → 2911
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      COG5184
      Location:2957 → 3323
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:4423 → 4794
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2707 → 2751
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2461 → 2508
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1212 → 1283
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam06701
      Location:1871 → 1931
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2555 → 2632
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam18346
      Location:2640 → 2697
      SH3_15; Mind bomb SH3 repeat domain

    7. XM_006229302.5 → XP_006229364.1  E3 ubiquitin-protein ligase HERC2 isoform X1

      See identical proteins and their annotated locations for XP_006229364.1

      UniProtKB/TrEMBL
      A0A0G2JUC9, D4ACN3
      Conserved Domains (9) summary
      cd08664
      Location:2766 → 2911
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      COG5184
      Location:2957 → 3323
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:4423 → 4794
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2707 → 2751
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2461 → 2508
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1212 → 1283
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam06701
      Location:1871 → 1931
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2555 → 2632
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam18346
      Location:2640 → 2697
      SH3_15; Mind bomb SH3 repeat domain

    8. XM_039112629.2 → XP_038968557.1  E3 ubiquitin-protein ligase HERC2 isoform X3

      UniProtKB/TrEMBL
      D4ACN3
      Conserved Domains (9) summary
      cd08664
      Location:2728 → 2873
      APC10-HERC2; APC10-like DOC1 domain present in HERC2 (HECT domain and RLD2)
      COG5184
      Location:2919 → 3285
      ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
      cd00078
      Location:4385 → 4756
      HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
      cd02344
      Location:2669 → 2713
      ZZ_HERC2; Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or ...
      cd14402
      Location:2423 → 2470
      UBA_HERC2; UBA domain found in probable E3 ubiquitin-protein ligase HERC2 and similar proteins
      pfam00173
      Location:1174 → 1245
      Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
      pfam06701
      Location:1833 → 1893
      MIB_HERC2; Mib_herc2
      pfam11515
      Location:2517 → 2594
      Cul7; Mouse development and cellular proliferation protein Cullin-7
      pfam18346
      Location:2602 → 2659
      SH3_15; Mind bomb SH3 repeat domain
    Nucleotide Protein Strain
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