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

Summary

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: EnsemblRapid: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 DNA damage response; proteasome-mediated ubiquitin-dependent protein catabolic process; and protein ubiquitination. Predicted to act upstream of or within negative regulation of Notch signaling pathway; neuron differentiation; and 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 intellectual developmental disorder 38 and pigmentation disease. Orthologous to human HERC2 (HECT and RLD domain containing E3 ubiquitin protein ligase 2). [provided by Alliance of Genome Resources, Dec 2024]
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

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_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC311424P1 (e-PCR)
- UniSTS:272901

RH138914 (e-PCR)
- UniSTS:221001

AU048235 (e-PCR)
- UniSTS:109737

AF061529 (e-PCR)
- UniSTS:208125

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

EC 2.3.2.26

XP_006229362.1

EC 2.3.2.26

XP_006229363.1

EC 2.3.2.26

XP_006229364.1

EC 2.3.2.26

XP_006229366.1

EC 2.3.2.26

XP_038968546.1

EC 2.3.2.26

XP_038968557.1

EC 2.3.2.26

XP_063118514.1

EC 2.3.2.26

XP_063118525.1

EC 2.3.2.26

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)

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

ENSRNOP00000019245.8, ENSRNOT00000019245.8

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

NC_086019.1 Reference GRCr8

Range

116009681..116243888

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A0G2JUC9, D4ACN3
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
XM_006229304.5 → XP_006229366.1 E3 ubiquitin-protein ligase HERC2 isoform X2

UniProtKB/TrEMBL

A0A8I5ZVG1, D4ACN3

Related

ENSRNOP00000083202.1, ENSRNOT00000103366.2

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

Related

ENSRNOP00000069050.1, ENSRNOT00000090796.3

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
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