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HERC4 HECT and RLD domain containing E3 ubiquitin protein ligase 4 [ Homo sapiens (human) ]

Gene ID: 26091, updated on 16-Oct-2021

Summary

Official Symbol
HERC4provided by HGNC
Official Full Name
HECT and RLD domain containing E3 ubiquitin protein ligase 4provided by HGNC
Primary source
HGNC:HGNC:24521
See related
Ensembl:ENSG00000148634 MIM:609248
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
HERC4 belongs to the HERC family of ubiquitin ligases, all of which contain a HECT domain and at least 1 RCC1 (MIM 179710)-like domain (RLD). The 350-amino acid HECT domain is predicted to catalyze the formation of a thioester with ubiquitin before transferring it to a substrate, and the RLD is predicted to act as a guanine nucleotide exchange factor for small G proteins (Hochrainer et al., 2005 [PubMed 15676274]).[supplied by OMIM, Mar 2008]
Expression
Ubiquitous expression in lymph node (RPKM 8.1), adrenal (RPKM 7.4) and 25 other tissues See more
Orthologs
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Genomic context

See HERC4 in Genome Data Viewer
Location:
10q21.3
Exon count:
32
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (67921905..68075324, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (69681662..69835040, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene SIRT1 promoter region Neighboring gene ribosomal protein L12 pseudogene 8 Neighboring gene sirtuin 1 Neighboring gene RPS3A pseudogene 38 Neighboring gene RNA, 7SL, cytoplasmic 220, pseudogene Neighboring gene POU class 5 homeobox 1 pseudogene 5 Neighboring gene myopalladin Neighboring gene uncharacterized LOC107984240 Neighboring gene RN7SK pseudogene 202 Neighboring gene atonal bHLH transcription factor 7

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 HECT and RLD domain containing E3 ubiquitin protein ligase 4 (HERC4) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells 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

  • KIAA1593, DKFZp564G092

Gene Ontology Provided by GOA

Function Evidence Code Pubs
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 IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
involved_in spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in fibrillar center IDA
Inferred from Direct Assay
more info
 

General protein information

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_001265114.1
NP_001265115.1
NP_001265116.1
NP_056416.2
NP_071362.1
XP_011537894.1
XP_011537895.1
XP_011537896.1
XP_011537897.1
XP_011537898.1
XP_011537899.1
XP_016871530.1
XP_024303695.1
XP_024303696.1
XP_024303697.1
XP_024303698.1
XP_024303699.1
XP_024303700.1
XP_024303701.1

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_001278185.2NP_001265114.1  probable E3 ubiquitin-protein ligase HERC4 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame segment compared to variant 1. The resulting isoform (c) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AY650032, AY650033, BC018114
    Consensus CDS
    CCDS60541.1
    UniProtKB/Swiss-Prot
    Q5GLZ8
    Related
    ENSP00000416504.2, ENST00000412272.6
    Conserved Domains (3) summary
    smart00119
    Location:735976
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:709977
    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:208257
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  2. NM_001278186.2NP_001265115.1  probable E3 ubiquitin-protein ligase HERC4 isoform d

    See identical proteins and their annotated locations for NP_001265115.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate exons compared to variant 1, and one causes a frameshift. These differences cause translation initiation at a downstream AUG and result in an isoform (d) with a shorter and distinct N-terminus and lacking an alternate internal segment, compared to isoform 1.
    Source sequence(s)
    AY650032, BC018114
    UniProtKB/Swiss-Prot
    Q5GLZ8
    Conserved Domains (3) summary
    smart00119
    Location:472791
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:446792
    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:553
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  3. NM_001278187.2NP_001265116.1  probable E3 ubiquitin-protein ligase HERC4 isoform e

    See identical proteins and their annotated locations for NP_001265116.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has an alternate 3'-most exon in place of most of the rest of the transcript compared to variant 1. The resulting isoform (e) has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AC024258, AY650034, BX101651
    Consensus CDS
    CCDS60542.1
    UniProtKB/Swiss-Prot
    Q5GLZ8
    Related
    ENSP00000422383.1, ENST00000492996.6
    Conserved Domains (1) summary
    COG5184
    Location:269
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
  4. NM_015601.4NP_056416.2  probable E3 ubiquitin-protein ligase HERC4 isoform b

    See identical proteins and their annotated locations for NP_056416.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    BC018114, BC039600, DB459623
    Consensus CDS
    CCDS7274.1
    UniProtKB/Swiss-Prot
    Q5GLZ8
    UniProtKB/TrEMBL
    A0A024QZN8
    Related
    ENSP00000362804.4, ENST00000373700.9
    Conserved Domains (2) summary
    cd00078
    Location:7011047
    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 ...
    cl27697
    Location:2344
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  5. NM_022079.3NP_071362.1  probable E3 ubiquitin-protein ligase HERC4 isoform a

    See identical proteins and their annotated locations for NP_071362.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AY221963, BC015043, BC018114
    Consensus CDS
    CCDS41533.1
    UniProtKB/Swiss-Prot
    Q5GLZ8
    Related
    ENSP00000378624.3, ENST00000395198.7
    Conserved Domains (2) summary
    cd00078
    Location:7091055
    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 ...
    cl27697
    Location:2344
    RCC1; Regulator of chromosome condensation (RCC1) repeat

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    67921905..68075324 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011539593.3XP_011537895.1  probable E3 ubiquitin-protein ligase HERC4 isoform X2

    Conserved Domains (3) summary
    smart00119
    Location:7511070
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:7251071
    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:232281
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  2. XM_024447931.1XP_024303699.1  probable E3 ubiquitin-protein ligase HERC4 isoform X4

    Conserved Domains (2) summary
    cd00078
    Location:7011047
    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 ...
    cl27697
    Location:2344
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  3. XM_017016041.2XP_016871530.1  probable E3 ubiquitin-protein ligase HERC4 isoform X8

  4. XM_011539597.3XP_011537899.1  probable E3 ubiquitin-protein ligase HERC4 isoform X7

    Conserved Domains (3) summary
    smart00119
    Location:638957
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:612958
    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:232281
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  5. XM_011539592.3XP_011537894.1  probable E3 ubiquitin-protein ligase HERC4 isoform X1

    Conserved Domains (2) summary
    COG5184
    Location:2368
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:7331079
    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_024447932.1XP_024303700.1  probable E3 ubiquitin-protein ligase HERC4 isoform X9

    Conserved Domains (1) summary
    cd00078
    Location:194540
    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 ...
  7. XM_011539596.2XP_011537898.1  probable E3 ubiquitin-protein ligase HERC4 isoform X6

    Conserved Domains (4) summary
    smart00119
    Location:665984
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:639985
    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:138187
    RCC1; Regulator of chromosome condensation (RCC1) repeat
    pfam13540
    Location:1645
    RCC1_2; Regulator of chromosome condensation (RCC1) repeat
  8. XM_011539594.2XP_011537896.1  probable E3 ubiquitin-protein ligase HERC4 isoform X5

    See identical proteins and their annotated locations for XP_011537896.1

    Related
    ENSP00000277817.6, ENST00000277817.10
    Conserved Domains (4) summary
    smart00119
    Location:6891008
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:6631009
    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:162211
    RCC1; Regulator of chromosome condensation (RCC1) repeat
    pfam13540
    Location:1645
    RCC1_2; Regulator of chromosome condensation (RCC1) repeat
  9. XM_024447927.1XP_024303695.1  probable E3 ubiquitin-protein ligase HERC4 isoform X1

    Conserved Domains (2) summary
    COG5184
    Location:2368
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:7331079
    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 ...
  10. XM_024447930.1XP_024303698.1  probable E3 ubiquitin-protein ligase HERC4 isoform X3

    Conserved Domains (2) summary
    cd00078
    Location:7091055
    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 ...
    cl27697
    Location:2344
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  11. XM_011539595.2XP_011537897.1  probable E3 ubiquitin-protein ligase HERC4 isoform X5

    See identical proteins and their annotated locations for XP_011537897.1

    Conserved Domains (4) summary
    smart00119
    Location:6891008
    HECTc; Domain Homologous to E6-AP Carboxyl Terminus with
    cd00078
    Location:6631009
    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:162211
    RCC1; Regulator of chromosome condensation (RCC1) repeat
    pfam13540
    Location:1645
    RCC1_2; Regulator of chromosome condensation (RCC1) repeat
  12. XM_024447928.1XP_024303696.1  probable E3 ubiquitin-protein ligase HERC4 isoform X1

    Conserved Domains (2) summary
    COG5184
    Location:2368
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]
    cd00078
    Location:7331079
    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 ...
  13. XM_024447929.1XP_024303697.1  probable E3 ubiquitin-protein ligase HERC4 isoform X3

    Conserved Domains (2) summary
    cd00078
    Location:7091055
    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 ...
    cl27697
    Location:2344
    RCC1; Regulator of chromosome condensation (RCC1) repeat
  14. XM_024447933.1XP_024303701.1  probable E3 ubiquitin-protein ligase HERC4 isoform X10

    Conserved Domains (1) summary
    COG5184
    Location:269
    ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

RNA

  1. XR_001747081.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001017972.1: Suppressed sequence

    Description
    NM_001017972.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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