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O54965 (RNF13_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 99. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
E3 ubiquitin-protein ligase RNF13

EC=6.3.2.-
Alternative name(s):
RING finger protein 13
Gene names
Name:Rnf13
Synonyms:Rzf
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length381 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

E3 ubiquitin-protein ligase that may play a role in controlling cell proliferation. Ref.5

Pathway

Protein modification; protein ubiquitination.

Subcellular location

Late endosome membrane; Single-pass membrane protein. Lysosome membrane. Cytoplasmcytosol. Nucleus inner membrane. Note: The mature protein is subjected to extensive proteolysis that leads to the shedding of the ectodomain into the lumen of vesicles and the release of the C-terminal fragment into the cytosol. Not detected in early endosomes. Treatment of the cells with either PMA or ionomycin stabilizes the full-length protein which relocalizes to recycling endosomes and to the inner nuclear membrane. Ref.5 Ref.6

Tissue specificity

Expressed in the brain, heart, kidney, liver and spleen. Higher expression in adult tissues compared to the embryonic counterparts. Ref.5

Domain

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

Post-translational modification

Auto-ubiquitinated.

N-glycosylated and also modified with chondroitin sulfate. Ref.5

Sequence similarities

Contains 1 PA (protease associated) domain.

Contains 1 RING-type zinc finger.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O54965-1)

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.
Isoform 2 (identifier: O54965-2)

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 3434 Potential
Chain35 – 381347E3 ubiquitin-protein ligase RNF13
PRO_0000056055

Regions

Topological domain35 – 182148Lumenal Potential
Transmembrane183 – 20321Helical; Potential
Topological domain204 – 381178Cytoplasmic Potential
Domain64 – 16097PA
Zinc finger240 – 28243RING-type; atypical

Amino acid modifications

Glycosylation881N-linked (GlcNAc...) Potential

Natural variations

Alternative sequence261 – 2688AYHCKCVD → GMSTHTVL in isoform 2.
VSP_005749
Alternative sequence269 – 381113Missing in isoform 2.
VSP_005750

Experimental info

Mutagenesis2661C → A: Loss of E3 ligase activity. Ref.5
Sequence conflict3621S → I in AAC03770. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified July 27, 2011. Version 2.
Checksum: 1E0EF4801A2C6FE8

FASTA38142,732
        10         20         30         40         50         60 
MLLSIGMLML SATQVYTILT VQLFAFLNLL PVEADILAYN FENASQTFED LPARFGYRLP 

        70         80         90        100        110        120 
AEGLKGFLIN SKPENACEPI VPPPLKDNSS GTFIVLIRRL DCNFDIKVLN AQRAGYKAAI 

       130        140        150        160        170        180 
VHNVDSDDLI SMGSNDIDTL KKIDIPSVFI GESSANSLKD EFTYEKGGHI ILVPELSLPL 

       190        200        210        220        230        240 
EYYLIPFLII VGICLILIVI FMITKFVQDR HRNRRNRLRK DQLKKLPVHK FKKGDEYDVC 

       250        260        270        280        290        300 
AICLEEYEDG DKLRILPCSH AYHCKCVDPW LTKTKKTCPV CKQKVVPSQG DSDSDTDSSQ 

       310        320        330        340        350        360 
EENQVSEHTP LLPPSASART QSFGSLSESH SHHNMTESSD YEDDDNEETD SSDADNEITD 

       370        380 
HSVVVQLQPN GEQDYNIANT V 

« Hide

Isoform 2 [UniParc].

Checksum: EB09D3ECF7660546
Show »

FASTA26830,249

References

« Hide 'large scale' references
[1]"The gene for a RING zinc finger protein is expressed in the inner chick ear after noise exposure."
Lomax M.I., Warner S.J., Bersirli C.G., Gong T.-W.L.
Prim. Sens. Neuron 2:305-316(1998)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
[2]"The transcriptional landscape of the mammalian genome."
Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. expand/collapse author list , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: C57BL/6J.
Tissue: Inner ear.
[3]Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: FVB/N.
Tissue: Mammary tumor.
[5]"The PA-TM-RING protein RING finger protein 13 is an endosomal integral membrane E3 ubiquitin ligase whose RING finger domain is released to the cytoplasm by proteolysis."
Bocock J.P., Carmicle S., Chhotani S., Ruffolo M.R., Chu H., Erickson A.H.
FEBS J. 276:1860-1877(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, TOPOGRAPHY, TISSUE SPECIFICITY, AUTOUBIQUITINATION, GLYCOSYLATION, MUTAGENESIS OF CYS-266.
[6]"Nuclear targeting of an endosomal E3 ubiquitin ligase."
Bocock J.P., Carmicle S., Madamba E., Erickson A.H.
Traffic 11:756-766(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
CCDSCCDS50913.1. [O54965-1]
RefSeqNP_001106884.1. NM_001113413.1. [O54965-1]
NP_036013.1. NM_011883.3. [O54965-2]
XP_006501520.1. XM_006501457.1. [O54965-1]
UniGeneMm.274360.

3D structure databases

ProteinModelPortalO54965.
SMRO54965. Positions 240-286.
ModBaseSearch...
MobiDBSearch...

PTM databases

PhosphoSiteO54965.

Proteomic databases

PRIDEO54965.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000041826; ENSMUSP00000049331; ENSMUSG00000036503. [O54965-1]
GeneID24017.
KEGGmmu:24017.
UCSCuc008phj.2. mouse. [O54965-1]

Organism-specific databases

CTD11342.
MGIMGI:1346341. Rnf13.

Phylogenomic databases

eggNOGNOG260066.
GeneTreeENSGT00730000110795.
HOGENOMHOG000234362.
HOVERGENHBG063762.
InParanoidQ6PEA8.
KOK15692.
OMAMGSNDID.
OrthoDBEOG7NW68S.
TreeFamTF317486.

Enzyme and pathway databases

UniPathwayUPA00143.

Gene expression databases

BgeeO54965.
CleanExMM_RNF13.
GenevestigatorO54965.

Family and domain databases

Gene3D3.30.40.10. 1 hit.
InterProIPR003137. Protease-assoc_domain.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamPF02225. PA. 1 hit.
PF13639. zf-RING_2. 1 hit.
[Graphical view]
SMARTSM00184. RING. 1 hit.
[Graphical view]
PROSITEPS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio303955.
PROO54965.
SOURCESearch...

Entry information

Entry nameRNF13_MOUSE
AccessionPrimary (citable) accession number: O54965
Secondary accession number(s): O54966, Q6PEA8
Entry history
Integrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: July 27, 2011
Last modified: July 9, 2014
This is version 99 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot