Rnf111 ring finger 111 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rnf111provided by MGI
Official Full Name: ring finger 111provided by MGI
Primary source: MGI:MGI:1934919
See related: Ensembl:ENSMUSG00000032217 AllianceGenome:MGI:1934919
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: ARK; Arkadia
Summary: Enables ubiquitin protein ligase activity. Involved in positive regulation of transcription, DNA-templated. Acts upstream of or within several processes, including cellular protein metabolic process; positive regulation of protein ubiquitination; and positive regulation of transforming growth factor beta receptor signaling pathway. Located in cytoplasm and nucleus. Part of protein-containing complex. Is expressed in several structures, including heart; nervous system; testis; and urinary system. Orthologous to human RNF111 (ring finger protein 111). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in thymus adult (RPKM 22.4), spleen adult (RPKM 21.0) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 D; 9 39.53 cM

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (70332706..70411122, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (70425424..70503840, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Arkadia-SKI/SnoN signaling differentially regulates TGF-beta-induced iTreg and Th17 cell differentiation.
Title: Arkadia-SKI/SnoN signaling differentially regulates TGF-β-induced iTreg and Th17 cell differentiation.
Arkadia, but not the C937A (CA) mutant lacking E3 ubiquitin-ligase activity, induced ubiquitylation and proteasome-dependent degradation of Smad6.
Title: Arkadia enhances BMP signalling through ubiquitylation and degradation of Smad6.
Arkadia enhances transforming growth factor-beta signaling responses and supports its tumor-suppressing properties in colorectal cancer.
Title: Enhancement of TGF-β signaling responses by the E3 ubiquitin ligase Arkadia provides tumor suppression in colorectal cancer.
RB1CC1 thus appears to play a unique role as a modulator of TGF-beta signaling by restricting substrate specificity of Arkadia.
Title: RB1CC1 protein positively regulates transforming growth factor-beta signaling through the modulation of Arkadia E3 ubiquitin ligase activity.
Trps1 haploinsufficiency enhances TGF-beta1-induced epithelial-to-mesenchymal transition (EMT) and tubulointerstitial fibrosis by modulating the amount of Smad7 through Arkadia/ubiquitin-mediated degradation.
Title: Trps1 haploinsufficiency promotes renal fibrosis by increasing Arkadia expression.
findings show that Arkadia regulates the levels of expression of c-Ski protein in cell-type-dependent fashion, and exhibits a tumour suppressor function by inhibiting tumour cell growth
Title: Context-dependent regulation of the expression of c-Ski protein by Arkadia in human cancer cells.
These results suggest that Arkadia targets Ski-bound, inactive phospho-Smad2/3 to regulate positively Myostatin/TGF-beta signaling.
Title: Arkadia represses the expression of myoblast differentiation markers through degradation of Ski and the Ski-bound Smad complex in C2C12 myoblasts.
This work presents an efficient method for expression in E. coli and purification of recombinant Arkadia RING finger domain as a soluble protein.
Title: High yield expression and NMR characterization of Arkadia E3 ubiquitin ligase RING-H2 finger domain.
Arkadia, a nuclear RING-domain E3 ubiquitin ligase, is essential for a subset of Nodal functions in the embryo
Title: Arkadia enhances Nodal/TGF-beta signaling by coupling phospho-Smad2/3 activity and turnover.
Arkadia induces degradation of SnoN and c-Ski in addition to Smad7.
Title: Arkadia induces degradation of SnoN and c-Ski to enhance transforming growth factor-beta signaling.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1) 1 citation
Endonuclease-mediated (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC291827P1 (e-PCR)
- UniSTS:272435

RH143275 (e-PCR)
- UniSTS:232522

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables SMAD binding	IBA Inferred from Biological aspect of Ancestor more info
enables SMAD binding	ISO Inferred from Sequence Orthology more info
enables SUMO polymer binding	IBA Inferred from Biological aspect of Ancestor more info
enables SUMO polymer binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	TAS Traceable Author Statement more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within pattern specification process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of protein ubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transforming growth factor beta receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of transforming growth factor beta receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of transforming growth factor beta receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein polyubiquitination	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein polyubiquitination	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within protein polyubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: E3 ubiquitin-protein ligase Arkadia

Names: RING finger protein 111; RING-type E3 ubiquitin transferase Arkadia

NP_001344423.1

EC 2.3.2.27

NP_001361682.1

EC 2.3.2.27

NP_001408494.1

EC 2.3.2.27

NP_001408496.1

EC 2.3.2.27

NP_001408497.1

EC 2.3.2.27

NP_001408498.1

EC 2.3.2.27

NP_291082.1

EC 2.3.2.27

XP_006511639.1

EC 2.3.2.27

XP_006511640.1

EC 2.3.2.27

XP_006511641.1

EC 2.3.2.27

XP_006511643.1

EC 2.3.2.27

XP_006511644.1

EC 2.3.2.27

XP_006511645.1

EC 2.3.2.27

XP_006511646.1

EC 2.3.2.27

XP_006511647.1

EC 2.3.2.27

XP_011241143.1

EC 2.3.2.27

XP_017169198.1

EC 2.3.2.27

XP_030100606.1

EC 2.3.2.27

XP_030100607.1

EC 2.3.2.27

XP_030100610.1

EC 2.3.2.27

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_001357494.2 → NP_001344423.1 E3 ubiquitin-protein ligase Arkadia isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

AC157086, AC158995

Consensus CDS

CCDS90614.1

Related

ENSMUSP00000149445.2, ENSMUST00000215848.2

Conserved Domains (3) summary

cd16474
Location:928 → 972

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:665 → 798

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
NM_001374753.1 → NP_001361682.1 E3 ubiquitin-protein ligase Arkadia isoform 3

Status: VALIDATED

Source sequence(s)

AC157086, AC158995

Consensus CDS

CCDS90613.1

UniProtKB/TrEMBL

A0A1L1SRK3

Conserved Domains (3) summary

cd16474
Location:927 → 971

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam08192
Location:278 → 425

Peptidase_S64; Peptidase family S64

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
NM_001421565.1 → NP_001408494.1 E3 ubiquitin-protein ligase Arkadia isoform 4

Status: VALIDATED

Source sequence(s)

AC157086, AC158995
NM_001421567.1 → NP_001408496.1 E3 ubiquitin-protein ligase Arkadia isoform 1

Status: VALIDATED

Source sequence(s)

AC157086, AC158995

UniProtKB/Swiss-Prot

Q3UVL7, Q6NSW2, Q7TMR3, Q8C881, Q8CBC0, Q99ML9
NM_001421568.1 → NP_001408497.1 E3 ubiquitin-protein ligase Arkadia isoform 2

Status: VALIDATED

Source sequence(s)

AC157086, AC158995
NM_001421569.1 → NP_001408498.1 E3 ubiquitin-protein ligase Arkadia isoform 3

Status: VALIDATED

Source sequence(s)

AC157086, AC158995

UniProtKB/TrEMBL

A0A1L1SRK3
NM_033604.3 → NP_291082.1 E3 ubiquitin-protein ligase Arkadia isoform 1

See identical proteins and their annotated locations for NP_291082.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AC157086, AC158995

Consensus CDS

CCDS23321.1

UniProtKB/Swiss-Prot

Q3UVL7, Q6NSW2, Q7TMR3, Q8C881, Q8CBC0, Q99ML9

Related

ENSMUSP00000034739.6, ENSMUST00000034739.12

Conserved Domains (3) summary

cd16474
Location:936 → 980

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:665 → 798

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

70332706..70411122 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006511580.4 → XP_006511643.1 E3 ubiquitin-protein ligase Arkadia isoform X6

Conserved Domains (3) summary

cd16474
Location:1027 → 1071

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:764 → 897

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511577.4 → XP_006511640.1 E3 ubiquitin-protein ligase Arkadia isoform X3

Conserved Domains (2) summary

cd16474
Location:1036 → 1080

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511576.3 → XP_006511639.1 E3 ubiquitin-protein ligase Arkadia isoform X1

Conserved Domains (2) summary

cd16474
Location:1044 → 1088

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511581.5 → XP_006511644.1 E3 ubiquitin-protein ligase Arkadia isoform X7

Conserved Domains (4) summary

pfam05539
Location:488 → 661

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:1026 → 1070

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:763 → 896

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_030244750.1 → XP_030100610.1 E3 ubiquitin-protein ligase Arkadia isoform X12

Conserved Domains (4) summary

pfam05539
Location:389 → 562

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:935 → 979

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:664 → 797

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_030244747.2 → XP_030100607.1 E3 ubiquitin-protein ligase Arkadia isoform X9

Conserved Domains (3) summary

pfam05539
Location:389 → 562

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:944 → 988

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511582.4 → XP_006511645.1 E3 ubiquitin-protein ligase Arkadia isoform X8

See identical proteins and their annotated locations for XP_006511645.1

Conserved Domains (2) summary

cd16474
Location:945 → 989

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_030244746.2 → XP_030100606.1 E3 ubiquitin-protein ligase Arkadia isoform X9

Conserved Domains (3) summary

pfam05539
Location:389 → 562

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:944 → 988

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511583.5 → XP_006511646.1 E3 ubiquitin-protein ligase Arkadia isoform X8

See identical proteins and their annotated locations for XP_006511646.1

Conserved Domains (2) summary

cd16474
Location:945 → 989

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511584.4 → XP_006511647.1 E3 ubiquitin-protein ligase Arkadia isoform X8

See identical proteins and their annotated locations for XP_006511647.1

Conserved Domains (2) summary

cd16474
Location:945 → 989

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:18 → 289

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_011242841.4 → XP_011241143.1 E3 ubiquitin-protein ligase Arkadia isoform X2

Conserved Domains (3) summary

pfam05539
Location:488 → 661

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:1043 → 1087

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_006511578.5 → XP_006511641.1 E3 ubiquitin-protein ligase Arkadia isoform X4

Conserved Domains (3) summary

cd16474
Location:1035 → 1079

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:764 → 897

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
XM_017313709.2 → XP_017169198.1 E3 ubiquitin-protein ligase Arkadia isoform X5

Conserved Domains (4) summary

pfam05539
Location:488 → 661

Pneumo_att_G; Pneumovirinae attachment membrane glycoprotein G

cd16474
Location:1034 → 1078

RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins

pfam09770
Location:763 → 896

PAT1; Topoisomerase II-associated protein PAT1

pfam15303
Location:117 → 388

RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus