U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Herc4 HECT and RLD domain containing E3 ubiquitin protein ligase 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 309758, updated on 17-Aug-2024

Summary

Go to the top of the page Help
Official Symbol
Herc4provided by RGD
Official Full Name
HECT and RLD domain containing E3 ubiquitin protein ligase 4provided by RGD
Primary source
RGD:1310971
See related
EnsemblRapid:ENSRNOG00000061040 AllianceGenome:RGD:1310971
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 ubiquitin-protein transferase activity. Predicted to be involved in negative regulation of smoothened signaling pathway and spermatogenesis. Predicted to be located in cytosol and fibrillar center. Orthologous to human HERC4 (HECT and RLD domain containing E3 ubiquitin protein ligase 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Liver (RPKM 195.2), Testes (RPKM 185.5) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
20p11
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (25329005..25403443, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (25329972..25404657, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (26755948..26831267)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene DnaJ heat shock protein family (Hsp40) member C12 Neighboring gene transfer RNA alanine (anticodon AGC) 21 Neighboring gene sirtuin 1 Neighboring gene mitochondrial ribosomal protein S36, pseudogene 1 Neighboring gene myopalladin Neighboring gene U1 small nuclear ribonucleoprotein C pseudogene

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Disruption of the ubiquitin ligase HERC4 causes defects in spermatozoon maturation and impaired fertility. Rodriguez CI, et al. Dev Biol, 2007 Dec 15. PMID 17967448
  2. HERC4 exerts an anti-tumor role through destabilizing the oncoprotein Smo. Sun X, et al. Biochem Biophys Res Commun, 2019 Jun 11. PMID 31010679
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of smoothened signaling pathway 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 spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in fibrillar center IEA
Inferred from Electronic Annotation
more info
  
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
probable E3 ubiquitin-protein ligase HERC4
Names
HECT domain and RCC1-like domain-containing protein 4
HECT-type E3 ubiquitin transferase HERC4
hect domain and RLD 4
NP_001012074.1
XP_006256196.1
XP_006256197.1
XP_006256198.1
XP_017457145.1
XP_038954684.1
XP_038954685.1
XP_038954686.1
XP_038954687.1
XP_063135240.1
XP_063135241.1
XP_063135242.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001012074.1 → NP_001012074.1  probable E3 ubiquitin-protein ligase HERC4

    See identical proteins and their annotated locations for NP_001012074.1

    Status: PROVISIONAL

    Source sequence(s)
    BC087104
    UniProtKB/Swiss-Prot
    Q5PQN1
    Related
    ENSRNOP00000072219.2, ENSRNOT00000083017.3
    Conserved Domains (2) summary
    COG5184
    Location:2 → 344
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:709 → 1055
    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 ...

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_086038.1 Reference GRCr8

    Range
    25329005..25403443 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063279171.1 → XP_063135241.1  probable E3 ubiquitin-protein ligase HERC4 isoform X2

    UniProtKB/TrEMBL
    A0A8I5ZWE9, A6JKY7

  2. XM_006256135.5 → XP_006256197.1  probable E3 ubiquitin-protein ligase HERC4 isoform X2

    See identical proteins and their annotated locations for XP_006256197.1

    UniProtKB/TrEMBL
    A0A8I5ZWE9, A6JKY7
    Conserved Domains (3) summary
    smart00119
    Location:727 → 1046
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:701 → 1047
    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 ...
    pfam00415
    Location:208 → 257
    RCC1; Regulator of chromosome condensation (RCC1) repeat

  3. XM_039098757.2 → XP_038954685.1  probable E3 ubiquitin-protein ligase HERC4 isoform X5

    UniProtKB/TrEMBL
    A6JKY6
    Conserved Domains (2) summary
    COG5184
    Location:2 → 344
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:580 → 926
    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 ...

  4. XM_039098756.2 → XP_038954684.1  probable E3 ubiquitin-protein ligase HERC4 isoform X4

    Conserved Domains (2) summary
    COG5184
    Location:2 → 344
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:588 → 934
    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 ...

  5. XM_006256134.5 → XP_006256196.1  probable E3 ubiquitin-protein ligase HERC4 isoform X1

    See identical proteins and their annotated locations for XP_006256196.1

    UniProtKB/Swiss-Prot
    Q5PQN1
    Conserved Domains (2) summary
    COG5184
    Location:2 → 344
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:709 → 1055
    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 ...

  6. XM_063279172.1 → XP_063135242.1  probable E3 ubiquitin-protein ligase HERC4 isoform X6

  7. XM_063279170.1 → XP_063135240.1  probable E3 ubiquitin-protein ligase HERC4 isoform X2

    UniProtKB/TrEMBL
    A0A8I5ZWE9, A6JKY7

  8. XM_017601656.3 → XP_017457145.1  probable E3 ubiquitin-protein ligase HERC4 isoform X1

    UniProtKB/Swiss-Prot
    Q5PQN1
    Conserved Domains (2) summary
    COG5184
    Location:2 → 344
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:709 → 1055
    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 ...

  9. XM_006256136.5 → XP_006256198.1  probable E3 ubiquitin-protein ligase HERC4 isoform X3

    Related
    ENSRNOP00000082108.2, ENSRNOT00000107240.2
    Conserved Domains (4) summary
    smart00119
    Location:665 → 984
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:639 → 985
    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 ...
    pfam00415
    Location:138 → 187
    RCC1; Regulator of chromosome condensation (RCC1) repeat
    pfam13540
    Location:16 → 45
    RCC1_2; Regulator of chromosome condensation (RCC1) repeat

  10. XM_039098758.2 → XP_038954686.1  probable E3 ubiquitin-protein ligase HERC4 isoform X7

    Conserved Domains (2) summary
    cd00078
    Location:454 → 800
    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 ...
    pfam00415
    Location:5 → 53
    RCC1; Regulator of chromosome condensation (RCC1) repeat

  11. XM_039098759.2 → XP_038954687.1  probable E3 ubiquitin-protein ligase HERC4 isoform X8

    Conserved Domains (1) summary
    cd00078
    Location:291 → 637
    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 ...

RNA

  1. XR_005497262.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5PQN1.1 GenPept UniProtKB/Swiss-Prot:Q5PQN1

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous