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O43567

- RNF13_HUMAN

UniProt

O43567 - RNF13_HUMAN

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Protein
E3 ubiquitin-protein ligase RNF13
Gene
RNF13, RZF
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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; atypical
Add
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
Complete GO annotation...

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; 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.2 Publications

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini35 – 182148Lumenal Reviewed prediction
Add
BLAST
Transmembranei183 – 20321Helical; Reviewed prediction
Add
BLAST
Topological domaini204 – 381178Cytoplasmic Reviewed prediction
Add
BLAST

GO - Cellular componenti

  1. Golgi membrane Source: UniProtKB-SubCell
  2. endoplasmic reticulum 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
Complete GO annotation...

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 – 3434 Reviewed prediction
Add
BLAST
Chaini35 – 381347E3 ubiquitin-protein ligase RNF13
PRO_0000056054Add
BLAST

Amino acid modifications

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

Post-translational modificationi

Auto-ubiquitinated.

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.

Family & Domainsi

Domains and Repeats

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

Domaini

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

Sequence similaritiesi

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.
VSP_055430Add
BLAST
Alternative sequencei19 – 137119Missing in isoform 2.
VSP_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.
ENST00000361785; ENSP00000355268; ENSG00000082996.
ENST00000392894; ENSP00000376628; ENSG00000082996.
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 .
ENST00000361785 ; ENSP00000355268 ; ENSG00000082996 .
ENST00000392894 ; ENSP00000376628 ; ENSG00000082996 .
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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 111 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

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