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Protein

GTP-binding protein Rab-3D

Gene

Rab3d

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

Functioni

Protein transport. Probably involved in regulated exocytosis (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi29 – 379GTPBy similarity
Nucleotide bindingi77 – 815GTPBy similarity
Nucleotide bindingi135 – 1384GTPBy similarity
Nucleotide bindingi165 – 1673GTPBy similarity

GO - Molecular functioni

  1. GDP binding Source: GO_Central
  2. GTPase activity Source: GO_Central
  3. GTPase binding Source: RGD
  4. GTP binding Source: GO_Central

GO - Biological processi

  1. GTP catabolic process Source: GO_Central
  2. intracellular protein transport Source: GO_Central
  3. peptidyl-cysteine methylation Source: Ensembl
  4. positive regulation of regulated secretory pathway Source: Ensembl
  5. protein secretion Source: GO_Central
  6. Rab protein signal transduction Source: GO_Central
  7. regulation of exocytosis Source: GO_Central
  8. synaptic vesicle exocytosis Source: GO_Central
  9. vesicle docking involved in exocytosis Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

Exocytosis, Protein transport, Transport

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
GTP-binding protein Rab-3D
Gene namesi
Name:Rab3d
Synonyms:Rab16
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 8

Organism-specific databases

RGDi620924. Rab3d.

Subcellular locationi

Cell membrane Curated; Lipid-anchor Curated; Cytoplasmic side Curated

GO - Cellular componenti

  1. endosome Source: GO_Central
  2. extracellular vesicular exosome Source: Ensembl
  3. mitochondrion Source: Ensembl
  4. plasma membrane Source: GO_Central
  5. secretory granule membrane Source: GO_Central
  6. synaptic vesicle Source: GO_Central
  7. transport vesicle Source: RGD
  8. zymogen granule Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 219218GTP-binding protein Rab-3DPRO_0000121090Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Lipidationi217 – 2171S-geranylgeranyl cysteineBy similarity
Modified residuei219 – 2191Cysteine methyl ester; partial1 Publication
Lipidationi219 – 2191S-geranylgeranyl cysteineBy similarity

Post-translational modificationi

In fetal glands the majority of the proteins are methylated, whereas in neonatal and adult glands, only 50% are methylated.1 Publication

Keywords - PTMi

Acetylation, Lipoprotein, Methylation, Prenylation

Proteomic databases

PaxDbiQ63942.
PRIDEiQ63942.

PTM databases

PhosphoSiteiQ63942.

Expressioni

Tissue specificityi

Highest levels found in lung.1 Publication

Gene expression databases

GenevestigatoriQ63942.

Interactioni

Subunit structurei

Interacts with RIMS1, RIMS2, RPH3A and RPH3AL (By similarity). Interacts with RAB3IP.By similarity1 Publication

Protein-protein interaction databases

IntActiQ63942. 1 interaction.
MINTiMINT-1506189.

Structurei

3D structure databases

ProteinModelPortaliQ63942.
SMRiQ63942. Positions 20-189.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi51 – 599Effector regionBy similarity

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated

Phylogenomic databases

eggNOGiCOG1100.
GeneTreeiENSGT00760000118937.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiQ63942.
KOiK07884.
OMAiEPSSCSC.
OrthoDBiEOG7JQBPC.
PhylomeDBiQ63942.
TreeFamiTF313199.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR003579. Small_GTPase_Rab_type.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
[Graphical view]
PRINTSiPR00449. RASTRNSFRMNG.
SMARTiSM00175. RAB. 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.

Q63942-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASASEPPAS PRDAADQNFD YMFKLLLIGN SSVGKTSFLF RYADDSFTPA
60 70 80 90 100
FVSTVGIDFK VKTVYRHDKR IKLQIWDTAG QERYRTITTA YYRGAMGFLL
110 120 130 140 150
MYDIANQESF TAVQDWATQI KTYSWDNAQV ILVGNKCDLE DERVVSAEDG
160 170 180 190 200
QRLAGDLGFE FFEASAKENI NVKQVFERLV DIICDKMNES LEPSSSPGSN
210
GKGPALGDTP PPQPSSCGC
Length:219
Mass (Da):24,290
Last modified:November 1, 1998 - v2
Checksum:iED82C97D66BF194A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti205 – 2051A → S in AAA41996 (PubMed:1313420).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U90206 mRNA. Translation: AAB81202.1.
BC081741 mRNA. Translation: AAH81741.1.
S68808 mRNA. Translation: AAB29895.1.
M83681 mRNA. Translation: AAA41996.1.
PIRiI67631.
RefSeqiNP_542147.1. NM_080580.2.
XP_006242656.1. XM_006242594.2.
UniGeneiRn.9822.

Genome annotation databases

EnsembliENSRNOT00000015609; ENSRNOP00000015609; ENSRNOG00000011582.
GeneIDi140665.
KEGGirno:140665.
UCSCiRGD:620924. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U90206 mRNA. Translation: AAB81202.1.
BC081741 mRNA. Translation: AAH81741.1.
S68808 mRNA. Translation: AAB29895.1.
M83681 mRNA. Translation: AAA41996.1.
PIRiI67631.
RefSeqiNP_542147.1. NM_080580.2.
XP_006242656.1. XM_006242594.2.
UniGeneiRn.9822.

3D structure databases

ProteinModelPortaliQ63942.
SMRiQ63942. Positions 20-189.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ63942. 1 interaction.
MINTiMINT-1506189.

PTM databases

PhosphoSiteiQ63942.

Proteomic databases

PaxDbiQ63942.
PRIDEiQ63942.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000015609; ENSRNOP00000015609; ENSRNOG00000011582.
GeneIDi140665.
KEGGirno:140665.
UCSCiRGD:620924. rat.

Organism-specific databases

CTDi9545.
RGDi620924. Rab3d.

Phylogenomic databases

eggNOGiCOG1100.
GeneTreeiENSGT00760000118937.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiQ63942.
KOiK07884.
OMAiEPSSCSC.
OrthoDBiEOG7JQBPC.
PhylomeDBiQ63942.
TreeFamiTF313199.

Miscellaneous databases

NextBioi620635.
PROiQ63942.

Gene expression databases

GenevestigatoriQ63942.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR003579. Small_GTPase_Rab_type.
[Graphical view]
PfamiPF00071. Ras. 1 hit.
[Graphical view]
PRINTSiPR00449. RASTRNSFRMNG.
SMARTiSM00175. RAB. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51419. RAB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Involvement of the ras-like GTPase rab3d in RBL-2H3 mast cell exocytosis following stimulation via high affinity IgE receptors (Fc epsilonRI)."
    Roa M., Paumet F., le Mao J., David B., Blank U.
    J. Immunol. 159:2815-2823(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "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].
    Tissue: Kidney.
  3. "RT-PCR cloning of Rab3 isoforms expressed in peritoneal mast cells."
    Oberhauser A.F., Balan V., Fernandez-Badilla C.L., Fernandez J.M.
    FEBS Lett. 339:171-174(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 16-82.
    Tissue: Mast cell.
  4. "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 22-219, TISSUE SPECIFICITY.
    Strain: Sprague-Dawley.
    Tissue: Brain.
  5. "Interaction cloning of Rabin3, a novel protein that associates with the Ras-like GTPase Rab3A."
    Brondyk W.H., McKiernan C.J., Fortner K.A., Stabila P., Holz R.W., Macara I.G.
    Mol. Cell. Biol. 15:1137-1143(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RAB3IP.
  6. "Carboxyl methylation of rab3D is developmentally regulated in the rat pancreas: correlation with exocrine function."
    Valentijn J.A., Jamieson J.D.
    Eur. J. Cell Biol. 76:204-211(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: METHYLATION AT CYS-219.
    Tissue: Pancreas.

Entry informationi

Entry nameiRAB3D_RAT
AccessioniPrimary (citable) accession number: Q63942
Secondary accession number(s): P35291
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: November 1, 1998
Last modified: March 4, 2015
This is version 122 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

External Data

Dasty 3

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 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.