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Protein

Ras-related protein RABF2b

Gene

RABF2B

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -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:27288222).4 Publications

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

Activity 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

  • GTPase activity Source: GO_Central
  • GTP binding Source: UniProtKB

GO - Biological processi

  • intracellular protein transport Source: UniProtKB
  • late endosome to vacuole transport Source: UniProtKB
  • Rab protein signal transduction Source: GO_Central
  • vacuole organization Source: UniProtKB

Keywordsi

Biological processProtein transport, Transport
LigandGTP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-ATH-6798695 Neutrophil degranulation
R-ATH-8873719 RAB geranylgeranylation
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

AraportiAT4G19640
TAIRilocus:2123010 AT4G19640

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cell membrane, Cytoplasm, 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

ExpressionAtlasiQ9SN68 baseline and differential
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). Binds to VPS3 (PubMed:29463724).6 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

3D structure databases

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
OMAiQRPNGTQ
OrthoDBiEOG09360MTI
PhylomeDBiQ9SN68

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR005225 Small_GTP-bd_dom
IPR001806 Small_GTPase
PfamiView protein in Pfam
PF00071 Ras, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00231 small_GTP, 1 hit
PROSITEiView protein in PROSITE
PS51419 RAB, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

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

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1P8B381A0A1P8B381_ARATH
Ras-related small GTP-binding famil...
ARA7 ARA-7, ATRAB-F2B, ATRAB5B, ATRABF2B, RAB GTPASE HOMOLOG F2B
193Annotation score:
A0A1P8B388A0A1P8B388_ARATH
Ras-related small GTP-binding famil...
ARA7 ARA-7, ATRAB-F2B, ATRAB5B, ATRABF2B, RAB GTPASE HOMOLOG F2B
149Annotation score:

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

Similar proteinsi

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

AraportiAT4G19640
TAIRilocus:2123010 AT4G19640

Phylogenomic databases

eggNOGiKOG0092 Eukaryota
ENOG410YCCP LUCA
HOGENOMiHOG000233968
InParanoidiQ9SN68
OMAiQRPNGTQ
OrthoDBiEOG09360MTI
PhylomeDBiQ9SN68

Enzyme and pathway databases

ReactomeiR-ATH-6798695 Neutrophil degranulation
R-ATH-8873719 RAB geranylgeranylation
R-ATH-8876198 RAB GEFs exchange GTP for GDP on RABs

Miscellaneous databases

EvolutionaryTraceiQ9SN68
PROiPR:Q9SN68

Gene expression databases

ExpressionAtlasiQ9SN68 baseline and differential
GenevisibleiQ9SN68 AT

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR005225 Small_GTP-bd_dom
IPR001806 Small_GTPase
PfamiView protein in Pfam
PF00071 Ras, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00231 small_GTP, 1 hit
PROSITEiView protein in PROSITE
PS51419 RAB, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRAF2B_ARATH
AccessioniPrimary (citable) accession number: Q9SN68
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 5, 2011
Last sequence update: May 1, 2000
Last modified: November 7, 2018
This is version 136 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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