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Protein

Ras-related protein Rab-39B

Gene

Rab39b

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

May be involved in vesicular trafficking (PubMed:20159109). Plays a role in synapse formation. May regulate the homeostasis of SNCA/alpha-synuclein (PubMed:25434005). Together with PICK1 proposed to ensure selectively GRIA2 exit from the endoplasmic reticulum to the Golgi and to regulate AMPAR compostion at the post-synapses and thus synaptic transmission (PubMed:25784538).2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi15 – 228GTPBy similarity
Nucleotide bindingi64 – 685GTPBy similarity
Nucleotide bindingi123 – 1264GTPBy similarity

GO - Molecular functioni

GO - Biological processi

  • protein transport Source: UniProtKB-KW
  • small GTPase mediated signal transduction Source: InterPro
  • synapse organization Source: UniProtKB
  • vesicle-mediated transport Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Ras-related protein Rab-39B
Gene namesi
Name:Rab39b
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome X

Organism-specific databases

MGIiMGI:1915040. Rab39b.

Subcellular locationi

GO - Cellular componenti

  • Golgi apparatus Source: UniProtKB
  • intracellular Source: MGI
  • neuron projection Source: MGI
  • plasma membrane Source: UniProtKB-SubCell
  • vesicle Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Golgi apparatus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 213213Ras-related protein Rab-39BPRO_0000121256Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei201 – 2011PhosphoserineCombined sources
Lipidationi211 – 2111S-geranylgeranyl cysteineBy similarity
Modified residuei213 – 2131Cysteine methyl esterBy similarity
Lipidationi213 – 2131S-geranylgeranyl cysteineBy similarity

Keywords - PTMi

Lipoprotein, Methylation, Phosphoprotein, Prenylation

Proteomic databases

MaxQBiQ8BHC1.
PaxDbiQ8BHC1.
PRIDEiQ8BHC1.

PTM databases

iPTMnetiQ8BHC1.
PhosphoSiteiQ8BHC1.

Expressioni

Tissue specificityi

Specifically expressed in neuron and neuronal precursors in the brain. Expression is high in all regions of the brain with highest levels observed in the hippocampus.1 Publication

Gene expression databases

BgeeiQ8BHC1.
CleanExiMM_RAB39B.
ExpressionAtlasiQ8BHC1. baseline and differential.
GenevisibleiQ8BHC1. MM.

Interactioni

Subunit structurei

Interacts (in GTP-bound form) with PICK1 (via PDZ domain); a PICK1 homodimer may allow simultaneous association of RAB39B and GRIA2 to PICK1 which is involved in GRIA2 trafficking.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
UacaQ8CGB3-34EBI-10767682,EBI-10767725

GO - Molecular functioni

Protein-protein interaction databases

IntActiQ8BHC1. 45 interactions.
STRINGi10090.ENSMUSP00000033545.

Structurei

3D structure databases

ProteinModelPortaliQ8BHC1.
SMRiQ8BHC1. Positions 7-171.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi37 – 459Effector regionBy similarity

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated

Phylogenomic databases

eggNOGiKOG0091. Eukaryota.
ENOG410ZQFG. LUCA.
GeneTreeiENSGT00760000118841.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiQ8BHC1.
KOiK07925.
OMAiMIAREIC.
OrthoDBiEOG7JHM6Q.
PhylomeDBiQ8BHC1.
TreeFamiTF300032.

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.

Q8BHC1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEAIWLYQFR LIVIGDSTVG KSCLIRRFTE GRFAQVSDPT VGVDFFSRLV
60 70 80 90 100
EIEPGKRIKL QIWDTAGQER FRSITRAYYR NSVGGLLLFD ITNRRSFQNV
110 120 130 140 150
HEWLEETKVH VQPYQIVFVL VGHKCDLDTQ RQVTRHEAEK LAAAYGMKYI
160 170 180 190 200
ETSARDAINV EKAFTDLTRD IYELVKRGEI TIQEGWEGVK SGFVPNVVHS
210
SEEVIKSERR CLC
Length:213
Mass (Da):24,636
Last modified:March 1, 2003 - v1
Checksum:i338F5B35C61FA88E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK039013 mRNA. Translation: BAC30206.1.
AK048981 mRNA. Translation: BAC33503.1.
AK160737 mRNA. Translation: BAE35978.1.
BC050853 mRNA. Translation: AAH50853.1.
BC052472 mRNA. Translation: AAH52472.1.
CCDSiCCDS30242.1.
RefSeqiNP_780331.1. NM_175122.6.
UniGeneiMm.45148.

Genome annotation databases

EnsembliENSMUST00000033545; ENSMUSP00000033545; ENSMUSG00000031202.
GeneIDi67790.
KEGGimmu:67790.
UCSCiuc009tqe.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK039013 mRNA. Translation: BAC30206.1.
AK048981 mRNA. Translation: BAC33503.1.
AK160737 mRNA. Translation: BAE35978.1.
BC050853 mRNA. Translation: AAH50853.1.
BC052472 mRNA. Translation: AAH52472.1.
CCDSiCCDS30242.1.
RefSeqiNP_780331.1. NM_175122.6.
UniGeneiMm.45148.

3D structure databases

ProteinModelPortaliQ8BHC1.
SMRiQ8BHC1. Positions 7-171.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ8BHC1. 45 interactions.
STRINGi10090.ENSMUSP00000033545.

PTM databases

iPTMnetiQ8BHC1.
PhosphoSiteiQ8BHC1.

Proteomic databases

MaxQBiQ8BHC1.
PaxDbiQ8BHC1.
PRIDEiQ8BHC1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000033545; ENSMUSP00000033545; ENSMUSG00000031202.
GeneIDi67790.
KEGGimmu:67790.
UCSCiuc009tqe.2. mouse.

Organism-specific databases

CTDi116442.
MGIiMGI:1915040. Rab39b.

Phylogenomic databases

eggNOGiKOG0091. Eukaryota.
ENOG410ZQFG. LUCA.
GeneTreeiENSGT00760000118841.
HOGENOMiHOG000233968.
HOVERGENiHBG009351.
InParanoidiQ8BHC1.
KOiK07925.
OMAiMIAREIC.
OrthoDBiEOG7JHM6Q.
PhylomeDBiQ8BHC1.
TreeFamiTF300032.

Miscellaneous databases

PROiQ8BHC1.
SOURCEiSearch...

Gene expression databases

BgeeiQ8BHC1.
CleanExiMM_RAB39B.
ExpressionAtlasiQ8BHC1. baseline and differential.
GenevisibleiQ8BHC1. MM.

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...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Cerebellum, Head and Hypothalamus.
  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].
    Strain: C57BL/6J.
    Tissue: Brain and Limb.
  3. Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-201, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain and Pancreas.
  5. "Small GTPase Rab39A interacts with UACA and regulates the retinoic acid-induced neurite morphology of Neuro2A cells."
    Mori Y., Matsui T., Omote D., Fukuda M.
    Biochem. Biophys. Res. Commun. 435:113-119(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH UACA.
  6. Cited for: FUNCTION.
  7. "The intellectual disability protein RAB39B selectively regulates GluA2 trafficking to determine synaptic AMPAR composition."
    Mignogna M.L., Giannandrea M., Gurgone A., Fanelli F., Raimondi F., Mapelli L., Bassani S., Fang H., Van Anken E., Alessio M., Passafaro M., Gatti S., Esteban J.A., Huganir R., D'Adamo P.
    Nat. Commun. 6:6504-6504(2015) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH PICK1.

Entry informationi

Entry nameiRB39B_MOUSE
AccessioniPrimary (citable) accession number: Q8BHC1
Secondary accession number(s): Q3TUJ3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: March 1, 2003
Last modified: July 6, 2016
This is version 117 of the entry and version 1 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. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.