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Protein

Ras-related protein RABF2b

Gene

RABF2B

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Endosomal protein that may be involved in endocytosis (PubMed:16103374). Involved in the trafficking of proteins from prevacuolar compartments (PVCs) to vacuoles (PubMed:23682115, PubMed:24824487). May activate the MON1-CCZ1 complex which acts as guanine nucleotide exchange factors (GEF) for Rab7 protein family, and serves as a link between Rab5 and Rab7 families in PVCs, and mediates PVC maturation (PubMed:24824487). Involved in vacuolar transport of storage proteins with EREX as effector. Regulates membrane trafficking to protein storage vacuoles (PSVs) (PubMed:20833725).4 Publications

Enzyme regulationi

Regulated by guanine nucleotide exchange factors (GEFs) which promote the exchange of bound GDP for free GTP.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi17 – 25GTPCombined sources1 Publication9
Nucleotide bindingi65 – 69GTPCombined sources1 Publication5
Nucleotide bindingi123 – 126GTPCombined sources1 Publication4
Nucleotide bindingi153 – 154GTPCombined sources1 Publication2

GO - Molecular functioni

  • GTP binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-ATH-6798695. Neutrophil degranulation.
R-ATH-8876198. RAB GEFs exchange GTP for GDP on RABs.

Names & Taxonomyi

Protein namesi
Recommended name:
Ras-related protein RABF2b1 Publication
Short name:
AtRABF2b1 Publication
Alternative name(s):
Ras-related protein Ara-71 Publication
Ras-related protein Rab5B1 Publication
Short name:
AtRab5B1 Publication
Gene namesi
Name:RABF2B1 Publication
Synonyms:ARA-71 Publication, RAB5B1 Publication
Ordered Locus Names:At4g19640Imported
ORF Names:F24J7.190Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

TAIRiAT4G19640.

Subcellular locationi

GO - Cellular componenti

  • early endosome Source: UniProtKB
  • early endosome membrane Source: UniProtKB-SubCell
  • endocytic vesicle Source: GO_Central
  • endoplasmic reticulum Source: TAIR
  • endosome Source: TAIR
  • plasma membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Endosome, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi19V → T: Loss of interaction with VPS9A. Loss of interaction with MON1. Loss of interaction with EREX. 3 Publications1
Mutagenesisi24S → N: Dominant negative (GDP-bound form); no effect on the interaction with VPS9A. 1 Publication1
Mutagenesisi36V → P: No effect on the interaction with VPS9A. 1 Publication1
Mutagenesisi42T → A: No effect on the interaction with VPS9A. 1 Publication1
Mutagenesisi44G → P: No effect on the interaction with VPS9A. 1 Publication1
Mutagenesisi46A → D: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi47F → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi64W → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi67A → G: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi69Q → E: Loss of interaction with VPS9A. 2 Publications1
Mutagenesisi69Q → L: Constitutively active (GTP-bound form); loss of targeting to plasma membrane and interaction with VPS9A. 2 Publications1
Mutagenesisi74S → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi75L → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi78M → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi79Y → A: Loss of interaction with VPS9A. 1 Publication1
Mutagenesisi123N → I: Blocks nucleotide binding; no effect on the interaction with VPS9A. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004066051 – 200Ras-related protein RABF2bAdd BLAST200

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi198S-geranylgeranyl cysteineBy similarity1
Lipidationi199S-geranylgeranyl cysteineBy similarity1

Keywords - PTMi

Lipoprotein, Prenylation

Proteomic databases

PaxDbiQ9SN68.
PRIDEiQ9SN68.

Expressioni

Tissue specificityi

Expressed in roots and actively dividing cells.1 Publication

Developmental stagei

Expressed during pollen germination and pollen tube growth.1 Publication

Inductioni

Activated by VPS9A.1 Publication

Gene expression databases

GenevisibleiQ9SN68. AT.

Interactioni

Subunit structurei

Interacts with VPS9A homodimer (PubMed:18055610, PubMed:20833725). Interacts with TCTP1 (PubMed:20736351). Interacts with MON1 (PubMed:24824487). Interacts with EREX (via PX domain) (PubMed:27288222).5 Publications

Protein-protein interaction databases

BioGridi12999. 1 interactor.
IntActiQ9SN68. 2 interactors.
STRINGi3702.AT4G19640.1.

Structurei

Secondary structure

1200
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi9 – 16Combined sources8
Helixi23 – 32Combined sources10
Turni36 – 38Combined sources3
Beta strandi41 – 43Combined sources3
Beta strandi46 – 54Combined sources9
Beta strandi57 – 65Combined sources9
Helixi70 – 76Combined sources7
Helixi77 – 80Combined sources4
Beta strandi84 – 91Combined sources8
Helixi95 – 111Combined sources17
Beta strandi117 – 123Combined sources7
Turni128 – 130Combined sources3
Helixi135 – 144Combined sources10
Beta strandi148 – 151Combined sources4
Beta strandi154 – 156Combined sources3
Helixi160 – 169Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EFCX-ray2.09B/D1-179[»]
2EFDX-ray3.00B/D1-179[»]
2EFEX-ray2.08B/D1-179[»]
2EFHX-ray2.10B/D1-179[»]
4G01X-ray2.20B1-179[»]
ProteinModelPortaliQ9SN68.
SMRiQ9SN68.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9SN68.

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi39 – 47Effector regionBy similarity9

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated

Phylogenomic databases

eggNOGiKOG0092. Eukaryota.
ENOG410YCCP. LUCA.
HOGENOMiHOG000233968.
InParanoidiQ9SN68.
OMAiPTSRTCC.
OrthoDBiEOG09360MTI.
PhylomeDBiQ9SN68.

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.

Q9SN68-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAAAGNKSIN AKLVLLGDVG AGKSSLVLRF VKDQFVEFQE STIGAAFFSQ
60 70 80 90 100
TLAVNDATVK FEIWDTAGQE RYHSLAPMYY RGAAAAIIVF DVTNQASFER
110 120 130 140 150
AKKWVQELQA QGNPNMVMAL AGNKSDLLDA RKVTAEDAQT YAQENGLFFM
160 170 180 190 200
ETSAKTATNV KEIFYEIARR LPRVQPTENP TGMVLPDRAM DRAVSSSCCA
Length:200
Mass (Da):21,873
Last modified:May 1, 2000 - v1
Checksum:i769F75CFC708C6D0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB038491 mRNA. Translation: BAB32669.1.
AL021768 Genomic DNA. Translation: CAA16940.1.
AL161551 Genomic DNA. Translation: CAB78966.1.
CP002687 Genomic DNA. Translation: AEE84207.1.
AF370309 mRNA. Translation: AAK44124.1.
AY052670 mRNA. Translation: AAK96574.1.
AY063095 mRNA. Translation: AAL34269.1.
PIRiT06157.
RefSeqiNP_193699.1. NM_118084.5.
UniGeneiAt.2030.

Genome annotation databases

EnsemblPlantsiAT4G19640.1; AT4G19640.1; AT4G19640.
GeneIDi827706.
GrameneiAT4G19640.1; AT4G19640.1; AT4G19640.
KEGGiath:AT4G19640.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB038491 mRNA. Translation: BAB32669.1.
AL021768 Genomic DNA. Translation: CAA16940.1.
AL161551 Genomic DNA. Translation: CAB78966.1.
CP002687 Genomic DNA. Translation: AEE84207.1.
AF370309 mRNA. Translation: AAK44124.1.
AY052670 mRNA. Translation: AAK96574.1.
AY063095 mRNA. Translation: AAL34269.1.
PIRiT06157.
RefSeqiNP_193699.1. NM_118084.5.
UniGeneiAt.2030.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2EFCX-ray2.09B/D1-179[»]
2EFDX-ray3.00B/D1-179[»]
2EFEX-ray2.08B/D1-179[»]
2EFHX-ray2.10B/D1-179[»]
4G01X-ray2.20B1-179[»]
ProteinModelPortaliQ9SN68.
SMRiQ9SN68.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi12999. 1 interactor.
IntActiQ9SN68. 2 interactors.
STRINGi3702.AT4G19640.1.

Proteomic databases

PaxDbiQ9SN68.
PRIDEiQ9SN68.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G19640.1; AT4G19640.1; AT4G19640.
GeneIDi827706.
GrameneiAT4G19640.1; AT4G19640.1; AT4G19640.
KEGGiath:AT4G19640.

Organism-specific databases

TAIRiAT4G19640.

Phylogenomic databases

eggNOGiKOG0092. Eukaryota.
ENOG410YCCP. LUCA.
HOGENOMiHOG000233968.
InParanoidiQ9SN68.
OMAiPTSRTCC.
OrthoDBiEOG09360MTI.
PhylomeDBiQ9SN68.

Enzyme and pathway databases

ReactomeiR-ATH-6798695. Neutrophil degranulation.
R-ATH-8876198. RAB GEFs exchange GTP for GDP on RABs.

Miscellaneous databases

EvolutionaryTraceiQ9SN68.
PROiQ9SN68.

Gene expression databases

GenevisibleiQ9SN68. AT.

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 nameiRAF2B_ARATH
AccessioniPrimary (citable) accession number: Q9SN68
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 5, 2011
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Over-expression of the constitutively active GTP-bound mutant of Leu-69 induces the formation of large ring-like structures of 1-2 micrometers in diameter.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.