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P35286 (RAB13_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 122. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Ras-related protein Rab-13
Gene names
Name:Rab13
OrganismRattus norvegicus (Rat) [Reference proteome]
Taxonomic identifier10116 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus

Protein attributes

Sequence length203 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

The small GTPases Rab are key regulators of intracellular membrane trafficking, from the formation of transport vesicles to their fusion with membranes. Rabs cycle between an inactive GDP-bound form and an active GTP-bound form that is able to recruit to membranes different sets of downstream effectors directly responsible for vesicle formation, movement, tethering and fusion. That Rab is involved in endocytic recycling and regulates the transport to the plasma membrane of transmembrane proteins like the tight junction protein OCLN/occludin. Thereby, it regulates the assembly and the activity of tight junctions. Moreover, it may also regulate tight junction assembly by activating the PKA signaling pathway and by reorganizing the actin cytoskeleton through the activation of the downstream effectors PRKACA and MICALL2 respectively. Through its role in tight junction assembly, may play a role in the establishment of Sertoli cell barrier. Plays also a role in angiogenesis through regulation of endothelial cells chemotaxis. Also involved in neurite outgrowth. Has also been proposed to play a role in post-Golgi membrane trafficking from the TGN to the recycling endosome. Finally, it has been involved in insulin-induced transport to the plasma membrane of the glucose transporter GLUT4 and therefore may play a role in glucose homeostasis. Ref.3 Ref.4 Ref.7

Enzyme regulation

Rab activation is generally mediated by a guanine exchange factor (GEF), while inactivation through hydrolysis of bound GTP is catalyzed by a GTPase activating protein (GAP). That Rab may be activated by DENND1C, a guanine exchange factor By similarity. Activated in response to insulin. Ref.4

Subunit structure

Interacts (GTP-bound form) with MICALL2; competes with RAB8A and is involved in tight junctions assembly. Interacts (GTP-bound form) with MICALL1. Interacts with PRKACA; downstream effector of RAB13 involved in tight junction assembly. Interacts with GRB2; may recruit RAB13 to the leading edge of migrating endothelial cells where it can activate RHOA. Interacts (isoprenylated form) with PDE6D; dissociates RAB13 from membranes. Interacts with CCDC64B/BICDR2. Interacts with LEPROT and LEPROTL1. Ref.6 Ref.7

Subcellular location

Cell membrane; Lipid-anchor; Cytoplasmic side By similarity. Cytoplasmic vesicle membrane; Lipid-anchor; Cytoplasmic side By similarity. Cell junctiontight junction By similarity. Golgi apparatustrans-Golgi network membrane By similarity. Recycling endosome membrane By similarity. Cell projectionlamellipodium By similarity. Cytoplasmic vesiclesecretory vesicle membrane By similarity. Note: Tight junctions or associated with vesicles scattered throughout the cytoplasm in cells lacking tight junctions By similarity. Relocalizes to the leading edge of lamellipodia in migrating endothelial cells By similarity.

Tissue specificity

Highest levels found in lung, kidney, whole brain and spinal cord. Expressed in all tissues tested including Sertoli and germ cells (at protein level). Also detected in osteoclasts. Ref.1 Ref.5

Sequence similarities

Belongs to the small GTPase superfamily. Rab family.

Ontologies

Keywords
   Biological processProtein transport
Transport
   Cellular componentCell junction
Cell membrane
Cell projection
Cytoplasmic vesicle
Endosome
Golgi apparatus
Membrane
Tight junction
   LigandGTP-binding
Nucleotide-binding
   PTMLipoprotein
Methylation
Phosphoprotein
Prenylation
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processcellular response to insulin stimulus

Inferred from mutant phenotype Ref.4. Source: UniProtKB

cortical actin cytoskeleton organization

Inferred from mutant phenotype Ref.7. Source: UniProtKB

endocytic recycling

Inferred from sequence or structural similarity. Source: UniProtKB

endosomal transport

Inferred from sequence or structural similarity. Source: UniProtKB

endothelial cell chemotaxis

Inferred from sequence or structural similarity. Source: UniProtKB

establishment of Sertoli cell barrier

Inferred from mutant phenotype Ref.7. Source: UniProtKB

establishment of protein localization to plasma membrane

Inferred from sequence or structural similarity. Source: UniProtKB

glucose homeostasis

Inferred by curator Ref.4. Source: UniProtKB

neuron projection development

Inferred from mutant phenotype Ref.3. Source: UniProtKB

positive regulation of glucose import

Inferred by curator Ref.4. Source: UniProtKB

protein kinase A signaling

Inferred from mutant phenotype Ref.7. Source: UniProtKB

protein localization to cell leading edge

Inferred from sequence or structural similarity. Source: UniProtKB

protein localization to plasma membrane

Inferred from direct assay Ref.4. Source: UniProtKB

protein transport

Inferred from electronic annotation. Source: UniProtKB-KW

small GTPase mediated signal transduction

Inferred from electronic annotation. Source: InterPro

tight junction assembly

Inferred from sequence or structural similarity. Source: UniProtKB

trans-Golgi network to recycling endosome transport

Inferred from sequence or structural similarity. Source: UniProtKB

   Cellular_componentcytoplasmic vesicle membrane

Traceable author statement. Source: Reactome

endocytic vesicle

Inferred from sequence or structural similarity. Source: UniProtKB

insulin-responsive compartment

Inferred from direct assay Ref.4. Source: UniProtKB

lamellipodium

Inferred from sequence or structural similarity. Source: UniProtKB

lateral plasma membrane

Inferred from sequence or structural similarity. Source: UniProtKB

neuron projection

Inferred from sequence or structural similarity. Source: UniProtKB

plasma membrane

Inferred from sequence or structural similarity. Source: UniProtKB

recycling endosome

Inferred from sequence or structural similarity. Source: UniProtKB

recycling endosome membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

tight junction

Inferred from sequence or structural similarity. Source: UniProtKB

trans-Golgi network

Inferred from sequence or structural similarity. Source: UniProtKB

transport vesicle membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionGTP binding

Inferred from sequence or structural similarity. Source: UniProtKB

GTPase activity

Inferred from electronic annotation. Source: Ensembl

protein binding

Inferred from physical interaction Ref.6. Source: IntAct

protein kinase A catalytic subunit binding

Inferred from physical interaction Ref.7. Source: UniProtKB

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Leprotl1Q6PDU43EBI-917332,EBI-8702651

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 200200Ras-related protein Rab-13
PRO_0000121184
Propeptide201 – 2033Removed in mature form Potential
PRO_0000370759

Regions

Nucleotide binding15 – 228GTP By similarity
Nucleotide binding63 – 675GTP By similarity
Nucleotide binding121 – 1244GTP By similarity
Motif37 – 459Effector region By similarity

Amino acid modifications

Modified residue1781Phosphoserine By similarity
Modified residue2001Cysteine methyl ester Potential
Lipidation2001S-geranylgeranyl cysteine By similarity

Experimental info

Sequence conflict761A → S in AAA41993. Ref.2
Sequence conflict1131G → E in AAA41993. Ref.2

Sequences

Sequence LengthMass (Da)Tools
P35286 [UniParc].

Last modified April 26, 2004. Version 2.
Checksum: B6687462C6EA95A4

FASTA20322,901
        10         20         30         40         50         60 
MAKAYDHLFK LLLIGDSGVG KTCLIIRFAE DNFNSTYIST IGIDFKIRTV EIEGKRIKLQ 

        70         80         90        100        110        120 
VWDTAGQERF KTITTAYYRG AMGIILVYDI TDEKSFENIQ NWMKSIKENA SAGVERLLLG 

       130        140        150        160        170        180 
NKCDMEAKRK VQREQAERLA REHRIRFFET SAKSSVNVDE AFSSLARDIL LKTGGRRSGN 

       190        200 
SSKPSSTDLK VSDKKNSNKC SLG 

« Hide

References

[1]"RAB13 participates in ectoplasmic specialization dynamics in the rat testis."
Mruk D.D., Lau A.S.
Biol. Reprod. 80:590-601(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
Strain: Sprague-Dawley.
[2]"Rab15, a novel low molecular weight GTP-binding protein specifically expressed in rat brain."
Elferink L.A., Anzai K., Scheller R.H.
J. Biol. Chem. 267:5768-5775(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 40-203.
Strain: Sprague-Dawley.
Tissue: Brain.
[3]"Rab13 regulates neurite outgrowth in PC12 cells through its effector protein, JRAB/MICAL-L2."
Sakane A., Honda K., Sasaki T.
Mol. Cell. Biol. 30:1077-1087(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION IN NEURITE OUTGROWTH.
[4]"Rab8A and Rab13 are activated by insulin and regulate GLUT4 translocation in muscle cells."
Sun Y., Bilan P.J., Liu Z., Klip A.
Proc. Natl. Acad. Sci. U.S.A. 107:19909-19914(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION IN EXOCYTOSIS, ENZYME REGULATION.
[5]"Rab13 is upregulated during osteoclast differentiation and associates with small vesicles revealing polarized distribution in resorbing cells."
Hirvonen M.J., Mulari M.T., Bueki K.G., Vihko P., Haerkoenen P.L., Vaeaenaenen H.K.
J. Histochem. Cytochem. 60:537-549(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: TISSUE SPECIFICITY.
[6]"Novel interaction of Rab13 and Rab8 with endospanins."
Hirvonen M.J., Bueki K.G., Sun Y., Mulari M.T., Haerkoenen P.L., Vaeaenaenen K.H.
FEBS Open Bio 3:83-88(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH LEPROT AND LEPROTL1.
[7]"RAB13 regulates Sertoli cell permeability barrier dynamics through protein kinase A."
Su W., Liu X.
J. Mol. Endocrinol. 50:305-318(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH PRKACA.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF525280 mRNA. Translation: AAM82588.1.
M83678 mRNA. Translation: AAA41993.1.
PIRD42148.
RefSeqNP_112354.1. NM_031092.1.
UniGeneRn.9819.

3D structure databases

ProteinModelPortalP35286.
SMRP35286. Positions 8-169.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActP35286. 4 interactions.
MINTMINT-2982767.
STRING10116.ENSRNOP00000022626.

PTM databases

PhosphoSiteP35286.

Proteomic databases

PaxDbP35286.
PRIDEP35286.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSRNOT00000022627; ENSRNOP00000022626; ENSRNOG00000016733.
GeneID81756.
KEGGrno:81756.
UCSCRGD:620880. rat.

Organism-specific databases

CTD5872.
RGD620880. Rab13.

Phylogenomic databases

eggNOGCOG1100.
GeneTreeENSGT00750000117504.
HOGENOMHOG000233968.
HOVERGENHBG009351.
InParanoidP35286.
KOK06109.
OMAKVQREQA.
OrthoDBEOG7VB2H4.
PhylomeDBP35286.
TreeFamTF314097.

Gene expression databases

GenevestigatorP35286.

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR003579. Small_GTPase_Rab_type.
[Graphical view]
PfamPF00071. Ras. 1 hit.
[Graphical view]
PRINTSPR00449. RASTRNSFRMNG.
SMARTSM00175. RAB. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 1 hit.
TIGRFAMsTIGR00231. small_GTP. 1 hit.
PROSITEPS51419. RAB. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio615526.
PROP35286.

Entry information

Entry nameRAB13_RAT
AccessionPrimary (citable) accession number: P35286
Secondary accession number(s): Q8K3X5
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: April 26, 2004
Last modified: July 9, 2014
This is version 122 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