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O43567

- RNF13_HUMAN

UniProt

O43567 - RNF13_HUMAN

Protein

E3 ubiquitin-protein ligase RNF13

Gene

RNF13

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 112 (01 Oct 2014)
      Sequence version 1 (01 Jun 1998)
      Previous versions | rss
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    Functioni

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

    Pathwayi

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri240 – 28243RING-type; atypicalPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. ligase activity Source: UniProtKB-KW
    2. ubiquitin-protein transferase activity Source: UniProtKB
    3. zinc ion binding Source: InterPro

    GO - Biological processi

    1. protein autoubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    UniPathwayiUPA00143.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    E3 ubiquitin-protein ligase RNF13 (EC:6.3.2.-)
    Alternative name(s):
    RING finger protein 13
    Gene namesi
    Name:RNF13
    Synonyms:RZF
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 3

    Organism-specific databases

    HGNCiHGNC:10057. RNF13.

    Subcellular locationi

    Endoplasmic reticulum membrane. Golgi apparatus membrane. Late endosome membrane By similarity; Single-pass membrane protein By similarity. Lysosome membrane. Nucleus inner membrane By similarity
    Note: Under certain conditions, relocalizes to recycling endosomes and to the inner nuclear membrane.By similarity

    GO - Cellular componenti

    1. endoplasmic reticulum membrane Source: UniProtKB-SubCell
    2. Golgi membrane Source: UniProtKB-SubCell
    3. integral component of membrane Source: UniProtKB-KW
    4. late endosome membrane Source: UniProtKB
    5. lysosomal membrane Source: UniProtKB
    6. nuclear inner membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Endoplasmic reticulum, Endosome, Golgi apparatus, Lysosome, Membrane, Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi43 – 431N → A: No effect on glycosylation. 1 Publication
    Mutagenesisi88 – 881N → A: Loss of glycosylation. 1 Publication
    Mutagenesisi258 – 2581C → A: Complete loss of E3 ligase activity; when associated with A-260. 1 Publication
    Mutagenesisi260 – 2601H → A: Complete loss of E3 ligase activity; when associated with A-258. 1 Publication
    Mutagenesisi270 – 2701W → A: Drastically reduces E3 ligase activity. 1 Publication

    Organism-specific databases

    PharmGKBiPA34422.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3434Sequence AnalysisAdd
    BLAST
    Chaini35 – 381347E3 ubiquitin-protein ligase RNF13PRO_0000056054Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi88 – 881N-linked (GlcNAc...)1 Publication

    Post-translational modificationi

    Auto-ubiquitinated.1 Publication

    Keywords - PTMi

    Glycoprotein, Ubl conjugation

    Proteomic databases

    MaxQBiO43567.
    PaxDbiO43567.
    PRIDEiO43567.

    PTM databases

    PhosphoSiteiO43567.

    Expressioni

    Tissue specificityi

    Widely expressed (at protein level). In normal pancreas, expressed in islets, but not in ducts, nor in acini (at protein level).1 Publication

    Gene expression databases

    ArrayExpressiO43567.
    BgeeiO43567.
    CleanExiHS_RNF13.
    GenevestigatoriO43567.

    Organism-specific databases

    HPAiHPA008709.

    Interactioni

    Protein-protein interaction databases

    BioGridi116470. 13 interactions.
    IntActiO43567. 7 interactions.
    MINTiMINT-4657952.
    STRINGi9606.ENSP00000341361.

    Structurei

    3D structure databases

    ProteinModelPortaliO43567.
    SMRiO43567. Positions 240-286.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini35 – 182148LumenalSequence AnalysisAdd
    BLAST
    Topological domaini204 – 381178CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei183 – 20321HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini65 – 16096PAAdd
    BLAST

    Domaini

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

    Sequence similaritiesi

    Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri240 – 28243RING-type; atypicalPROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Signal, Transmembrane, Transmembrane helix, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG5540.
    HOGENOMiHOG000234362.
    HOVERGENiHBG063762.
    InParanoidiO43567.
    KOiK15692.
    OMAiMGSNDID.
    OrthoDBiEOG7NW68S.
    PhylomeDBiO43567.
    TreeFamiTF317486.

    Family and domain databases

    Gene3Di3.30.40.10. 1 hit.
    InterProiIPR003137. Protease-assoc_domain.
    IPR001841. Znf_RING.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view]
    PfamiPF02225. PA. 1 hit.
    PF13639. zf-RING_2. 1 hit.
    [Graphical view]
    SMARTiSM00184. RING. 1 hit.
    [Graphical view]
    PROSITEiPS50089. ZF_RING_2. 1 hit.
    [Graphical view]

    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. Align

    Isoform 1 (identifier: O43567-1) [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

    MLLSIGMLML SATQVYTILT VQLFAFLNLL PVEADILAYN FENASQTFDD    50
    LPARFGYRLP AEGLKGFLIN SKPENACEPI VPPPVKDNSS GTFIVLIRRL 100
    DCNFDIKVLN AQRAGYKAAI VHNVDSDDLI SMGSNDIEVL KKIDIPSVFI 150
    GESSANSLKD EFTYEKGGHL ILVPEFSLPL EYYLIPFLII VGICLILIVI 200
    FMITKFVQDR HRARRNRLRK DQLKKLPVHK FKKGDEYDVC AICLDEYEDG 250
    DKLRILPCSH AYHCKCVDPW LTKTKKTCPV CKQKVVPSQG DSDSDTDSSQ 300
    EENEVTEHTP LLRPLASVSA QSFGALSESR SHQNMTESSD YEEDDNEDTD 350
    SSDAENEINE HDVVVQLQPN GERDYNIANT V 381
    Length:381
    Mass (Da):42,814
    Last modified:June 1, 1998 - v1
    Checksum:i4600727D0F197653
    GO
    Isoform 2 (identifier: O43567-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-18: MLLSIGMLMLSATQVYTI → MLILMTSLAWDPTTVSTV
         19-137: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:262
    Mass (Da):29,713
    Checksum:iDAAF0885999293D3
    GO

    Sequence cautioni

    The sequence AAH17878.1 differs from that shown. Reason: Contaminating sequence. Potential poly-A sequence.

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 1818MLLSI…QVYTI → MLILMTSLAWDPTTVSTV in isoform 2. 1 PublicationVSP_055430Add
    BLAST
    Alternative sequencei19 – 137119Missing in isoform 2. 1 PublicationVSP_055431Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF037204 mRNA. Translation: AAC03769.1.
    AF070558 mRNA. Translation: AAC28641.1.
    AK313304 mRNA. Translation: BAG36109.1.
    AK090638 mRNA. Translation: BAG52202.1.
    AK090771 mRNA. Translation: BAG52224.1.
    CR456804 mRNA. Translation: CAG33085.1.
    AC069216 Genomic DNA. No translation available.
    AC117395 Genomic DNA. No translation available.
    CH471052 Genomic DNA. Translation: EAW78858.1.
    CH471052 Genomic DNA. Translation: EAW78859.1.
    CH471052 Genomic DNA. Translation: EAW78860.1.
    CH471052 Genomic DNA. Translation: EAW78861.1.
    CH471052 Genomic DNA. Translation: EAW78862.1.
    CH471052 Genomic DNA. Translation: EAW78863.1.
    BC009803 mRNA. Translation: AAH09803.1.
    BC009781 mRNA. Translation: AAH09781.1.
    BC017878 mRNA. Translation: AAH17878.1. Sequence problems.
    CCDSiCCDS3146.1.
    RefSeqiNP_009213.1. NM_007282.4.
    NP_899237.1. NM_183381.2.
    UniGeneiHs.12333.

    Genome annotation databases

    EnsembliENST00000344229; ENSP00000341361; ENSG00000082996. [O43567-1]
    ENST00000361785; ENSP00000355268; ENSG00000082996. [O43567-2]
    ENST00000392894; ENSP00000376628; ENSG00000082996. [O43567-1]
    GeneIDi11342.
    KEGGihsa:11342.
    UCSCiuc003exn.4. human.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF037204 mRNA. Translation: AAC03769.1 .
    AF070558 mRNA. Translation: AAC28641.1 .
    AK313304 mRNA. Translation: BAG36109.1 .
    AK090638 mRNA. Translation: BAG52202.1 .
    AK090771 mRNA. Translation: BAG52224.1 .
    CR456804 mRNA. Translation: CAG33085.1 .
    AC069216 Genomic DNA. No translation available.
    AC117395 Genomic DNA. No translation available.
    CH471052 Genomic DNA. Translation: EAW78858.1 .
    CH471052 Genomic DNA. Translation: EAW78859.1 .
    CH471052 Genomic DNA. Translation: EAW78860.1 .
    CH471052 Genomic DNA. Translation: EAW78861.1 .
    CH471052 Genomic DNA. Translation: EAW78862.1 .
    CH471052 Genomic DNA. Translation: EAW78863.1 .
    BC009803 mRNA. Translation: AAH09803.1 .
    BC009781 mRNA. Translation: AAH09781.1 .
    BC017878 mRNA. Translation: AAH17878.1 . Sequence problems.
    CCDSi CCDS3146.1.
    RefSeqi NP_009213.1. NM_007282.4.
    NP_899237.1. NM_183381.2.
    UniGenei Hs.12333.

    3D structure databases

    ProteinModelPortali O43567.
    SMRi O43567. Positions 240-286.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 116470. 13 interactions.
    IntActi O43567. 7 interactions.
    MINTi MINT-4657952.
    STRINGi 9606.ENSP00000341361.

    PTM databases

    PhosphoSitei O43567.

    Proteomic databases

    MaxQBi O43567.
    PaxDbi O43567.
    PRIDEi O43567.

    Protocols and materials databases

    DNASUi 11342.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000344229 ; ENSP00000341361 ; ENSG00000082996 . [O43567-1 ]
    ENST00000361785 ; ENSP00000355268 ; ENSG00000082996 . [O43567-2 ]
    ENST00000392894 ; ENSP00000376628 ; ENSG00000082996 . [O43567-1 ]
    GeneIDi 11342.
    KEGGi hsa:11342.
    UCSCi uc003exn.4. human.

    Organism-specific databases

    CTDi 11342.
    GeneCardsi GC03P149531.
    HGNCi HGNC:10057. RNF13.
    HPAi HPA008709.
    MIMi 609247. gene.
    neXtProti NX_O43567.
    PharmGKBi PA34422.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG5540.
    HOGENOMi HOG000234362.
    HOVERGENi HBG063762.
    InParanoidi O43567.
    KOi K15692.
    OMAi MGSNDID.
    OrthoDBi EOG7NW68S.
    PhylomeDBi O43567.
    TreeFami TF317486.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .

    Miscellaneous databases

    ChiTaRSi RNF13. human.
    GeneWikii RNF13.
    GenomeRNAii 11342.
    NextBioi 43096.
    PROi O43567.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O43567.
    Bgeei O43567.
    CleanExi HS_RNF13.
    Genevestigatori O43567.

    Family and domain databases

    Gene3Di 3.30.40.10. 1 hit.
    InterProi IPR003137. Protease-assoc_domain.
    IPR001841. Znf_RING.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view ]
    Pfami PF02225. PA. 1 hit.
    PF13639. zf-RING_2. 1 hit.
    [Graphical view ]
    SMARTi SM00184. RING. 1 hit.
    [Graphical view ]
    PROSITEi PS50089. ZF_RING_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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] (ISOFORM 1).
    2. Yu W., Gibbs R.A.
      Submitted (JUN-1998) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Brain.
    3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
      Tissue: Amygdala, Glial tumor and Spleen.
    4. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
      Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
      Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    5. "The DNA sequence, annotation and analysis of human chromosome 3."
      Muzny D.M., Scherer S.E., Kaul R., Wang J., Yu J., Sudbrak R., Buhay C.J., Chen R., Cree A., Ding Y., Dugan-Rocha S., Gill R., Gunaratne P., Harris R.A., Hawes A.C., Hernandez J., Hodgson A.V., Hume J.
      , Jackson A., Khan Z.M., Kovar-Smith C., Lewis L.R., Lozado R.J., Metzker M.L., Milosavljevic A., Miner G.R., Morgan M.B., Nazareth L.V., Scott G., Sodergren E., Song X.-Z., Steffen D., Wei S., Wheeler D.A., Wright M.W., Worley K.C., Yuan Y., Zhang Z., Adams C.Q., Ansari-Lari M.A., Ayele M., Brown M.J., Chen G., Chen Z., Clendenning J., Clerc-Blankenburg K.P., Chen R., Chen Z., Davis C., Delgado O., Dinh H.H., Dong W., Draper H., Ernst S., Fu G., Gonzalez-Garay M.L., Garcia D.K., Gillett W., Gu J., Hao B., Haugen E., Havlak P., He X., Hennig S., Hu S., Huang W., Jackson L.R., Jacob L.S., Kelly S.H., Kube M., Levy R., Li Z., Liu B., Liu J., Liu W., Lu J., Maheshwari M., Nguyen B.-V., Okwuonu G.O., Palmeiri A., Pasternak S., Perez L.M., Phelps K.A., Plopper F.J., Qiang B., Raymond C., Rodriguez R., Saenphimmachak C., Santibanez J., Shen H., Shen Y., Subramanian S., Tabor P.E., Verduzco D., Waldron L., Wang J., Wang J., Wang Q., Williams G.A., Wong G.K.-S., Yao Z., Zhang J., Zhang X., Zhao G., Zhou J., Zhou Y., Nelson D., Lehrach H., Reinhardt R., Naylor S.L., Yang H., Olson M., Weinstock G., Gibbs R.A.
      Nature 440:1194-1198(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    7. "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] (ISOFORM 1).
      Tissue: Brain, Skeletal muscle and Urinary bladder.
    8. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Tissue: Placenta.
    9. "RNF13: a novel RING-type ubiquitin ligase over-expressed in pancreatic cancer."
      Zhang Q., Meng Y., Zhang L., Chen J., Zhu D.
      Cell Res. 19:348-357(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AUTOUBIQUITINATION, GLYCOSYLATION AT ASN-88, MUTAGENESIS OF ASN-43; ASN-88; CYS-258; HIS-260 AND TRP-270.

    Entry informationi

    Entry nameiRNF13_HUMAN
    AccessioniPrimary (citable) accession number: O43567
    Secondary accession number(s): A6NC87
    , B3KR12, Q05D66, Q6IBJ9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 6, 2002
    Last sequence update: June 1, 1998
    Last modified: October 1, 2014
    This is version 112 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 3
      Human chromosome 3: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    4. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3