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Protein

E3 ubiquitin-protein ligase RNF13

Gene

RNF13

Organism
Homo sapiens (Human)
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

Keywordsi

Molecular functionTransferase
Biological processUbl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

UniPathwayiUPA00143

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
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

EuPathDBiHostDB:ENSG00000082996.19
HGNCiHGNC:10057 RNF13
MIMi609247 gene
neXtProtiNX_O43567

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

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi43N → A: No effect on glycosylation. 1 Publication1
Mutagenesisi88N → A: Loss of glycosylation. 1 Publication1
Mutagenesisi258C → A: Complete loss of E3 ligase activity; when associated with A-260. 1 Publication1
Mutagenesisi260H → A: Complete loss of E3 ligase activity; when associated with A-258. 1 Publication1
Mutagenesisi270W → A: Drastically reduces E3 ligase activity. 1 Publication1

Organism-specific databases

DisGeNETi11342
OpenTargetsiENSG00000082996
PharmGKBiPA34422

Polymorphism and mutation databases

BioMutaiRNF13

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 34Sequence analysisAdd BLAST34
ChainiPRO_000005605435 – 381E3 ubiquitin-protein ligase RNF13Add BLAST347

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi88N-linked (GlcNAc...) asparagine1 Publication1

Post-translational modificationi

Auto-ubiquitinated.1 Publication

Keywords - PTMi

Glycoprotein, Ubl conjugation

Proteomic databases

EPDiO43567
MaxQBiO43567
PaxDbiO43567
PeptideAtlasiO43567
PRIDEiO43567
ProteomicsDBi49058

PTM databases

iPTMnetiO43567
PhosphoSitePlusiO43567

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

BgeeiENSG00000082996
CleanExiHS_RNF13
ExpressionAtlasiO43567 baseline and differential
GenevisibleiO43567 HS

Organism-specific databases

HPAiHPA064784

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
UBE2NP610882EBI-2129183,EBI-1052908

Protein-protein interaction databases

BioGridi116470, 37 interactors
IntActiO43567, 11 interactors
STRINGi9606.ENSP00000341361

Structurei

3D structure databases

ProteinModelPortaliO43567
SMRiO43567
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini65 – 160PAAdd BLAST96

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
InParanoidiO43567
KOiK15692
OMAiNMTESSE
OrthoDBiEOG091G08WC
PhylomeDBiO43567
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

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

        10         20         30         40         50
MLLSIGMLML SATQVYTILT VQLFAFLNLL PVEADILAYN FENASQTFDD
60 70 80 90 100
LPARFGYRLP AEGLKGFLIN SKPENACEPI VPPPVKDNSS GTFIVLIRRL
110 120 130 140 150
DCNFDIKVLN AQRAGYKAAI VHNVDSDDLI SMGSNDIEVL KKIDIPSVFI
160 170 180 190 200
GESSANSLKD EFTYEKGGHL ILVPEFSLPL EYYLIPFLII VGICLILIVI
210 220 230 240 250
FMITKFVQDR HRARRNRLRK DQLKKLPVHK FKKGDEYDVC AICLDEYEDG
260 270 280 290 300
DKLRILPCSH AYHCKCVDPW LTKTKKTCPV CKQKVVPSQG DSDSDTDSSQ
310 320 330 340 350
EENEVTEHTP LLRPLASVSA QSFGALSESR SHQNMTESSD YEEDDNEDTD
360 370 380
SSDAENEINE HDVVVQLQPN GERDYNIANT V
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 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0554301 – 18MLLSI…QVYTI → MLILMTSLAWDPTTVSTV in isoform 2. 1 PublicationAdd BLAST18
Alternative sequenceiVSP_05543119 – 137Missing in isoform 2. 1 PublicationAdd BLAST119

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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 [O43567-1]
RefSeqiNP_009213.1, NM_007282.4 [O43567-1]
NP_899237.1, NM_183381.2 [O43567-1]
XP_005247149.1, XM_005247092.3 [O43567-2]
XP_011510675.1, XM_011512373.2 [O43567-1]
XP_011510676.1, XM_011512374.2 [O43567-1]
XP_011510678.1, XM_011512376.2 [O43567-2]
XP_016861143.1, XM_017005654.1 [O43567-1]
XP_016861144.1, XM_017005655.1 [O43567-1]
XP_016861145.1, XM_017005656.1 [O43567-2]
XP_016861146.1, XM_017005657.1 [O43567-2]
XP_016861147.1, XM_017005658.1 [O43567-2]
XP_016861148.1, XM_017005659.1 [O43567-2]
UniGeneiHs.12333

Genome annotation databases

EnsembliENST00000344229; ENSP00000341361; ENSG00000082996 [O43567-1]
ENST00000361785; ENSP00000355268; ENSG00000082996 [O43567-2]
ENST00000392894; ENSP00000376628; ENSG00000082996 [O43567-1]
GeneIDi11342
KEGGihsa:11342
UCSCiuc003exn.5 human [O43567-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiRNF13_HUMAN
AccessioniPrimary (citable) accession number: O43567
Secondary accession number(s): A6NC87
, B3KR12, Q05D66, Q6IBJ9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 6, 2002
Last sequence update: June 1, 1998
Last modified: June 20, 2018
This is version 140 of the entry and version 1 of the sequence. See 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

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