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Protein

E3 ubiquitin-protein ligase RNF13

Gene

Rnf13

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation.1 Publication

Catalytic activityi

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N6-ubiquitinyl-[acceptor protein]-L-lysine.

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri240 – 282RING-type; atypicalPROSITE-ProRule annotationAdd BLAST43

GO - Molecular functioni

GO - Biological processi

  • protein autoubiquitination Source: UniProtKB
  • ubiquitin-dependent protein catabolic process Source: GO_Central

Keywordsi

Molecular functionTransferase
Biological processUbl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

UniPathwayi
UPA00143

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase RNF13 (EC:2.3.2.27)
Alternative name(s):
RING finger protein 13
RING-type E3 ubiquitin transferase RNF13Curated
Gene namesi
Name:Rnf13
Synonyms:Rzf
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 3

Organism-specific databases

MGIiMGI:1346341 Rnf13

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini35 – 182LumenalSequence analysisAdd BLAST148
Transmembranei183 – 203HelicalSequence analysisAdd BLAST21
Topological domaini204 – 381CytoplasmicSequence analysisAdd BLAST178

Keywords - Cellular componenti

Cytoplasm, Endosome, Lysosome, Membrane, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi266C → A: Loss of E3 ligase activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 34Sequence analysisAdd BLAST34
ChainiPRO_000005605535 – 381E3 ubiquitin-protein ligase RNF13Add BLAST347

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi88N-linked (GlcNAc...) asparagineSequence analysis1

Post-translational modificationi

Auto-ubiquitinated.1 Publication
N-glycosylated and also modified with chondroitin sulfate.1 Publication

Keywords - PTMi

Glycoprotein, Ubl conjugation

Proteomic databases

MaxQBiO54965
PaxDbiO54965
PeptideAtlasiO54965
PRIDEiO54965

PTM databases

iPTMnetiO54965
PhosphoSitePlusiO54965

Expressioni

Tissue specificityi

Expressed in the brain, heart, kidney, liver and spleen. Higher expression in adult tissues compared to the embryonic counterparts.1 Publication

Gene expression databases

BgeeiENSMUSG00000036503 Expressed in 293 organ(s), highest expression level in camera-type eye
CleanExiMM_RNF13
ExpressionAtlasiO54965 baseline and differential
GenevisibleiO54965 MM

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000049331

Structurei

3D structure databases

ProteinModelPortaliO54965
SMRiO54965
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini64 – 160PAAdd BLAST97

Domaini

The RING-type zinc finger domain is required for E3 ligase activity.

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri240 – 282RING-type; atypicalPROSITE-ProRule annotationAdd BLAST43

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix, Zinc-finger

Phylogenomic databases

eggNOGiKOG4628 Eukaryota
ENOG410Z5DF LUCA
GeneTreeiENSGT00760000119057
HOGENOMiHOG000234362
HOVERGENiHBG063762
InParanoidiO54965
KOiK15692
OMAiNYDVCAI
OrthoDBiEOG091G08WC
TreeFamiTF317486

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR003137 PA_domain
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF02225 PA, 1 hit
PF13639 zf-RING_2, 1 hit
SMARTiView protein in SMART
SM00184 RING, 1 hit
PROSITEiView protein in PROSITE
PS50089 ZF_RING_2, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 6 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: O54965-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MLLSIGMLML SATQVYTILT VQLFAFLNLL PVEADILAYN FENASQTFED
60 70 80 90 100
LPARFGYRLP AEGLKGFLIN SKPENACEPI VPPPLKDNSS GTFIVLIRRL
110 120 130 140 150
DCNFDIKVLN AQRAGYKAAI VHNVDSDDLI SMGSNDIDTL KKIDIPSVFI
160 170 180 190 200
GESSANSLKD EFTYEKGGHI ILVPELSLPL EYYLIPFLII VGICLILIVI
210 220 230 240 250
FMITKFVQDR HRNRRNRLRK DQLKKLPVHK FKKGDEYDVC AICLEEYEDG
260 270 280 290 300
DKLRILPCSH AYHCKCVDPW LTKTKKTCPV CKQKVVPSQG DSDSDTDSSQ
310 320 330 340 350
EENQVSEHTP LLPPSASART QSFGSLSESH SHHNMTESSD YEDDDNEETD
360 370 380
SSDADNEITD HSVVVQLQPN GEQDYNIANT V
Length:381
Mass (Da):42,732
Last modified:July 27, 2011 - v2
Checksum:i1E0EF4801A2C6FE8
GO
Isoform 2 (identifier: O54965-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     261-268: AYHCKCVD → GMSTHTVL
     269-381: Missing.

Show »
Length:268
Mass (Da):30,249
Checksum:iEB09D3ECF7660546
GO

Computationally mapped potential isoform sequencesi

There are 6 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
Q8C4F9Q8C4F9_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13 mCG_19872
244Annotation score:
Q8CB78Q8CB78_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13 mCG_19872
352Annotation score:
A0A0G2JEM4A0A0G2JEM4_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13
131Annotation score:
A0A0G2JGT7A0A0G2JGT7_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13 mCG_19872
166Annotation score:
A0A0G2JE17A0A0G2JE17_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13
64Annotation score:
A0A0G2JDP6A0A0G2JDP6_MOUSE
E3 ubiquitin-protein ligase RNF13
Rnf13
96Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti362S → I in AAC03770 (Ref. 1) Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_005749261 – 268AYHCKCVD → GMSTHTVL in isoform 2. 1 Publication8
Alternative sequenceiVSP_005750269 – 381Missing in isoform 2. 1 PublicationAdd BLAST113

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF037205 mRNA Translation: AAC03770.1
AF037206 mRNA Translation: AAC03771.1
AK158046 mRNA Translation: BAE34334.1
CH466530 Genomic DNA Translation: EDL35322.1
CH466530 Genomic DNA Translation: EDL35326.1
BC058182 mRNA Translation: AAH58182.1
CCDSiCCDS50913.1 [O54965-1]
CCDS79910.1 [O54965-2]
RefSeqiNP_001106884.1, NM_001113413.2 [O54965-1]
NP_036013.1, NM_011883.4 [O54965-2]
XP_006501520.1, XM_006501457.3
UniGeneiMm.274360
Mm.445604

Genome annotation databases

EnsembliENSMUST00000041826; ENSMUSP00000049331; ENSMUSG00000036503 [O54965-1]
ENSMUST00000199041; ENSMUSP00000142335; ENSMUSG00000036503 [O54965-2]
GeneIDi24017
KEGGimmu:24017
UCSCiuc008phj.3 mouse [O54965-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF037205 mRNA Translation: AAC03770.1
AF037206 mRNA Translation: AAC03771.1
AK158046 mRNA Translation: BAE34334.1
CH466530 Genomic DNA Translation: EDL35322.1
CH466530 Genomic DNA Translation: EDL35326.1
BC058182 mRNA Translation: AAH58182.1
CCDSiCCDS50913.1 [O54965-1]
CCDS79910.1 [O54965-2]
RefSeqiNP_001106884.1, NM_001113413.2 [O54965-1]
NP_036013.1, NM_011883.4 [O54965-2]
XP_006501520.1, XM_006501457.3
UniGeneiMm.274360
Mm.445604

3D structure databases

ProteinModelPortaliO54965
SMRiO54965
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000049331

PTM databases

iPTMnetiO54965
PhosphoSitePlusiO54965

Proteomic databases

MaxQBiO54965
PaxDbiO54965
PeptideAtlasiO54965
PRIDEiO54965

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000041826; ENSMUSP00000049331; ENSMUSG00000036503 [O54965-1]
ENSMUST00000199041; ENSMUSP00000142335; ENSMUSG00000036503 [O54965-2]
GeneIDi24017
KEGGimmu:24017
UCSCiuc008phj.3 mouse [O54965-1]

Organism-specific databases

CTDi11342
MGIiMGI:1346341 Rnf13

Phylogenomic databases

eggNOGiKOG4628 Eukaryota
ENOG410Z5DF LUCA
GeneTreeiENSGT00760000119057
HOGENOMiHOG000234362
HOVERGENiHBG063762
InParanoidiO54965
KOiK15692
OMAiNYDVCAI
OrthoDBiEOG091G08WC
TreeFamiTF317486

Enzyme and pathway databases

UniPathwayi
UPA00143

Miscellaneous databases

PROiPR:O54965
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000036503 Expressed in 293 organ(s), highest expression level in camera-type eye
CleanExiMM_RNF13
ExpressionAtlasiO54965 baseline and differential
GenevisibleiO54965 MM

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR003137 PA_domain
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF02225 PA, 1 hit
PF13639 zf-RING_2, 1 hit
SMARTiView protein in SMART
SM00184 RING, 1 hit
PROSITEiView protein in PROSITE
PS50089 ZF_RING_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRNF13_MOUSE
AccessioniPrimary (citable) accession number: O54965
Secondary accession number(s): O54966, Q6PEA8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: July 27, 2011
Last modified: November 7, 2018
This is version 126 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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