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Protein

Ras-related protein Rab-13

Gene

Rab13

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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.3 Publications

Enzyme regulationi

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.By similarity1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi15 – 22GTPBy similarity8
Nucleotide bindingi63 – 67GTPBy similarity5
Nucleotide bindingi121 – 124GTPBy similarity4

GO - Molecular functioni

  • GTPase activity Source: Ensembl
  • GTP binding Source: UniProtKB
  • protein kinase A catalytic subunit binding Source: UniProtKB

GO - Biological processi

  • bicellular tight junction assembly Source: UniProtKB
  • cellular response to insulin stimulus Source: UniProtKB
  • cortical actin cytoskeleton organization Source: UniProtKB
  • endocytic recycling Source: UniProtKB
  • endosomal transport Source: UniProtKB
  • endothelial cell chemotaxis Source: UniProtKB
  • establishment of protein localization to plasma membrane Source: UniProtKB
  • establishment of Sertoli cell barrier Source: UniProtKB
  • glucose homeostasis Source: UniProtKB
  • membrane organization Source: Reactome
  • neuron projection development Source: UniProtKB
  • positive regulation of glucose import Source: UniProtKB
  • protein kinase A signaling Source: UniProtKB
  • protein localization to cell leading edge Source: UniProtKB
  • protein localization to plasma membrane Source: UniProtKB
  • protein secretion Source: GO_Central
  • small GTPase mediated signal transduction Source: InterPro
  • trans-Golgi network to recycling endosome transport Source: UniProtKB
  • vesicle docking involved in exocytosis Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-RNO-1445148. Translocation of GLUT4 to the plasma membrane.
R-RNO-8876198. RAB GEFs exchange GTP for GDP on RABs.

Names & Taxonomyi

Protein namesi
Recommended name:
Ras-related protein Rab-13
Gene namesi
Name:Rab13
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi620880. Rab13.

Subcellular locationi

  • Cell membrane By similarity; Lipid-anchor Curated; Cytoplasmic side Curated
  • Cytoplasmic vesicle membrane By similarity; Lipid-anchor Curated; Cytoplasmic side Curated
  • Cell junctiontight junction By similarity
  • Golgi apparatustrans-Golgi network membrane By similarity
  • Recycling endosome membrane By similarity
  • Cell projectionlamellipodium 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).By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Cell projection, Cytoplasmic vesicle, Endosome, Golgi apparatus, Membrane, Tight junction

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001211841 – 200Ras-related protein Rab-13Add BLAST200
PropeptideiPRO_0000370759201 – 203Removed in mature formSequence analysis3

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei178PhosphoserineBy similarity1
Modified residuei200Cysteine methyl esterSequence analysis1
Lipidationi200S-geranylgeranyl cysteineBy similarity1

Keywords - PTMi

Lipoprotein, Methylation, Phosphoprotein, Prenylation

Proteomic databases

PaxDbiP35286.
PRIDEiP35286.

PTM databases

iPTMnetiP35286.
PhosphoSitePlusiP35286.

Expressioni

Tissue specificityi

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.2 Publications

Gene expression databases

BgeeiENSRNOG00000016733.
ExpressionAtlasiP35286. baseline and differential.
GenevisibleiP35286. RN.

Interactioni

Subunit structurei

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 BICDL2/BICDR2. Interacts with LEPROT and LEPROTL1.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
Leprotl1Q6PDU43EBI-917332,EBI-8702651

GO - Molecular functioni

  • protein kinase A catalytic subunit binding Source: UniProtKB

Protein-protein interaction databases

IntActiP35286. 4 interactors.
MINTiMINT-2982767.
STRINGi10116.ENSRNOP00000022626.

Structurei

3D structure databases

ProteinModelPortaliP35286.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi37 – 45Effector regionBy similarity9

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated

Phylogenomic databases

eggNOGiKOG0078. Eukaryota.
ENOG410XPUI. LUCA.
GeneTreeiENSGT00860000133675.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiP35286.
KOiK06109.
OMAiFENVENW.
PhylomeDBiP35286.
TreeFamiTF314097.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51419. RAB. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P35286-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKAYDHLFK LLLIGDSGVG KTCLIIRFAE DNFNSTYIST IGIDFKIRTV
60 70 80 90 100
EIEGKRIKLQ VWDTAGQERF KTITTAYYRG AMGIILVYDI TDEKSFENIQ
110 120 130 140 150
NWMKSIKENA SAGVERLLLG NKCDMEAKRK VQREQAERLA REHRIRFFET
160 170 180 190 200
SAKSSVNVDE AFSSLARDIL LKTGGRRSGN SSKPSSTDLK VSDKKNSNKC

SLG
Length:203
Mass (Da):22,901
Last modified:April 26, 2004 - v2
Checksum:iB6687462C6EA95A4
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti76A → S in AAA41993 (PubMed:1313420).Curated1
Sequence conflicti113G → E in AAA41993 (PubMed:1313420).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF525280 mRNA. Translation: AAM82588.1.
M83678 mRNA. Translation: AAA41993.1.
PIRiD42148.
RefSeqiNP_112354.1. NM_031092.1.
UniGeneiRn.9819.

Genome annotation databases

EnsembliENSRNOT00000092112; ENSRNOP00000071741; ENSRNOG00000016733.
GeneIDi81756.
KEGGirno:81756.
UCSCiRGD:620880. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF525280 mRNA. Translation: AAM82588.1.
M83678 mRNA. Translation: AAA41993.1.
PIRiD42148.
RefSeqiNP_112354.1. NM_031092.1.
UniGeneiRn.9819.

3D structure databases

ProteinModelPortaliP35286.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP35286. 4 interactors.
MINTiMINT-2982767.
STRINGi10116.ENSRNOP00000022626.

PTM databases

iPTMnetiP35286.
PhosphoSitePlusiP35286.

Proteomic databases

PaxDbiP35286.
PRIDEiP35286.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000092112; ENSRNOP00000071741; ENSRNOG00000016733.
GeneIDi81756.
KEGGirno:81756.
UCSCiRGD:620880. rat.

Organism-specific databases

CTDi5872.
RGDi620880. Rab13.

Phylogenomic databases

eggNOGiKOG0078. Eukaryota.
ENOG410XPUI. LUCA.
GeneTreeiENSGT00860000133675.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiP35286.
KOiK06109.
OMAiFENVENW.
PhylomeDBiP35286.
TreeFamiTF314097.

Enzyme and pathway databases

ReactomeiR-RNO-1445148. Translocation of GLUT4 to the plasma membrane.
R-RNO-8876198. RAB GEFs exchange GTP for GDP on RABs.

Miscellaneous databases

PROiP35286.

Gene expression databases

BgeeiENSRNOG00000016733.
ExpressionAtlasiP35286. baseline and differential.
GenevisibleiP35286. RN.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51419. RAB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRAB13_RAT
AccessioniPrimary (citable) accession number: P35286
Secondary accession number(s): Q8K3X5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: April 26, 2004
Last modified: November 30, 2016
This is version 146 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.