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Ras-related protein RABF2a (AtRABF2a) (Ras-related protein Rab5A) (AtRab5A) (Ras-related protein Rha1)

 RAF2A_ARATH             Reviewed;         200 AA.
P31582;
01-JUL-1993, integrated into UniProtKB/Swiss-Prot.
01-JUL-1993, sequence version 1.
18-JUL-2018, entry version 144.
RecName: Full=Ras-related protein RABF2a;
Short=AtRABF2a;
AltName: Full=Ras-related protein Rab5A;
Short=AtRab5A;
AltName: Full=Ras-related protein Rha1;
Name=RABF2A; Synonyms=RAB5A, RHA1; OrderedLocusNames=At5g45130;
ORFNames=K17O22.15;
Arabidopsis thaliana (Mouse-ear cress).
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae;
Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae;
Arabidopsis.
NCBI_TaxID=3702;
[1]
NUCLEOTIDE SEQUENCE [MRNA].
TISSUE=Flower;
PubMed=1844882; DOI=10.1111/j.1365-313X.1991.00167.x;
Anuntalabhochai S., Terryn N., van Montagu M., Inze D.;
"Molecular characterization of an Arabidopsis thaliana cDNA encoding a
small GTP-binding protein, Rha1.";
Plant J. 1:167-174(1991).
[2]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
STRAIN=cv. C24;
PubMed=8305870; DOI=10.1105/tpc.5.12.1761;
Terryn N., Arias M.B., Engler G., Tire C., Villarroel R.,
van Montagu M., Inze D.;
"rha1, a gene encoding a small GTP binding protein from Arabidopsis,
is expressed primarily in developing guard cells.";
Plant Cell 5:1761-1769(1993).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Columbia;
PubMed=10718197; DOI=10.1093/dnares/7.1.31;
Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Kotani H.,
Tabata S.;
"Structural analysis of Arabidopsis thaliana chromosome 5. X. Sequence
features of the regions of 3,076,755 bp covered by sixty P1 and TAC
clones.";
DNA Res. 7:31-63(2000).
[4]
GENOME REANNOTATION.
STRAIN=cv. Columbia;
PubMed=27862469; DOI=10.1111/tpj.13415;
Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
Town C.D.;
"Araport11: a complete reannotation of the Arabidopsis thaliana
reference genome.";
Plant J. 89:789-804(2017).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
STRAIN=cv. Columbia;
PubMed=14593172; DOI=10.1126/science.1088305;
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J.,
Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F.,
Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.,
Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J.,
Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y.,
Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P.,
Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F.,
Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M.,
Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J.,
Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T.,
Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y.,
Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.;
"Empirical analysis of transcriptional activity in the Arabidopsis
genome.";
Science 302:842-846(2003).
[6]
FUNCTION, SUBCELLULAR LOCATION, AND MUTAGENESIS OF SER-24; THR-42 AND
198-CYS-CYS-199.
PubMed=12724533; DOI=10.1105/tpc.009779;
Sohn E.J., Kim E.S., Zhao M., Kim S.J., Kim H., Kim Y.W., Lee Y.J.,
Hillmer S., Sohn U., Jiang L., Hwang I.;
"Rha1, an Arabidopsis Rab5 homolog, plays a critical role in the
vacuolar trafficking of soluble cargo proteins.";
Plant Cell 15:1057-1070(2003).
[7]
GENE FAMILY, AND NOMENCLATURE.
PubMed=12644670; DOI=10.1104/pp.013052;
Vernoud V., Horton A.C., Yang Z., Nielsen E.;
"Analysis of the small GTPase gene superfamily of Arabidopsis.";
Plant Physiol. 131:1191-1208(2003).
[8]
SUBCELLULAR LOCATION, AND MUTAGENESIS OF SER-24; THR-42; GLN-69 AND
198-CYS-CYS-199.
PubMed=15509844; DOI=10.1093/pcp/pch142;
Lee G.J., Sohn E.J., Lee M.H., Hwang I.;
"The Arabidopsis rab5 homologs rha1 and ara7 localize to the
prevacuolar compartment.";
Plant Cell Physiol. 45:1211-1220(2004).
[9]
INTERACTION WITH VPS9A, INDUCTION, AND MUTAGENESIS OF SER-24; GLN-69
AND ASN-123.
PubMed=18055610; DOI=10.1105/tpc.107.053876;
Goh T., Uchida W., Arakawa S., Ito E., Dainobu T., Ebine K.,
Takeuchi M., Sato K., Ueda T., Nakano A.;
"VPS9a, the common activator for two distinct types of Rab5 GTPases,
is essential for the development of Arabidopsis thaliana.";
Plant Cell 19:3504-3515(2007).
[10]
DEVELOPMENTAL STAGE.
PubMed=18775970; DOI=10.1104/pp.108.126375;
Wang Y., Zhang W.Z., Song L.F., Zou J.J., Su Z., Wu W.H.;
"Transcriptome analyses show changes in gene expression to accompany
pollen germination and tube growth in Arabidopsis.";
Plant Physiol. 148:1201-1211(2008).
[11]
FUNCTION, AND MUTAGENESIS OF SER-24.
PubMed=21899678; DOI=10.1111/j.1600-0854.2011.01276.x;
Jung C., Lee G.J., Jang M., Lee M., Lee J., Kang H., Sohn E.J.,
Hwang I.;
"Identification of sorting motifs of AtbetaFruct4 for trafficking from
the ER to the vacuole through the Golgi and PVC.";
Traffic 12:1774-1792(2011).
[12]
FUNCTION, INTERACTION WITH EREX, AND MUTAGENESIS OF SER-24.
PubMed=27288222; DOI=10.1105/tpc.16.00326;
Sakurai H.T., Inoue T., Nakano A., Ueda T.;
"ENDOSOMAL RAB EFFECTOR WITH PX-DOMAIN, an interacting partner of RAB5
GTPases, regulates membrane trafficking to protein storage vacuoles in
Arabidopsis.";
Plant Cell 28:1490-1503(2016).
[13]
INTERACTION WITH VPS3.
PubMed=29463724; DOI=10.1073/pnas.1717839115;
Takemoto K., Ebine K., Askani J.C., Krueger F., Gonzalez Z.A., Ito E.,
Goh T., Schumacher K., Nakano A., Ueda T.;
"Distinct sets of tethering complexes, SNARE complexes, and Rab
GTPases mediate membrane fusion at the vacuole in Arabidopsis.";
Proc. Natl. Acad. Sci. U.S.A. 115:E2457-E2466(2018).
-!- FUNCTION: Involved in the trafficking of soluble cargo proteins
from the prevacuolar compartment to the central vacuole
(PubMed:12724533, PubMed:21899678). Involved in vacuolar transport
of storage proteins with EREX as effector. Regulates membrane
trafficking to protein storage vacuoles (PSVs).
{ECO:0000269|PubMed:12724533, ECO:0000269|PubMed:21899678}.
-!- SUBUNIT: Interacts with VPS9A (PubMed:18055610). Interacts with
EREX (via PX domain) (PubMed:27288222). Binds to VPS3
(PubMed:29463724). {ECO:0000269|PubMed:18055610,
ECO:0000269|PubMed:27288222, ECO:0000269|PubMed:29463724}.
-!- SUBCELLULAR LOCATION: Endosome membrane
{ECO:0000269|PubMed:12724533, ECO:0000269|PubMed:15509844}; Lipid-
anchor {ECO:0000305|PubMed:12724533, ECO:0000305|PubMed:15509844}.
Prevacuolar compartment membrane {ECO:0000269|PubMed:12724533,
ECO:0000269|PubMed:15509844}; Lipid-anchor {ECO:0000305}.
-!- TISSUE SPECIFICITY: High in stem, root, and inflorescence.
-!- DEVELOPMENTAL STAGE: Expressed during pollen germination and
pollen tube growth. {ECO:0000269|PubMed:18775970}.
-!- INDUCTION: Activated by VPS9A. {ECO:0000269|PubMed:18055610}.
-!- SIMILARITY: Belongs to the small GTPase superfamily. Rab family.
{ECO:0000305}.
-----------------------------------------------------------------------
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-----------------------------------------------------------------------
EMBL; X59152; CAA41863.1; -; mRNA.
EMBL; Z22958; CAA80534.1; -; Genomic_DNA.
EMBL; AB019224; BAB09498.1; -; Genomic_DNA.
EMBL; CP002688; AED95208.1; -; Genomic_DNA.
EMBL; AF389298; AAK63870.1; -; mRNA.
EMBL; AY097362; AAM19878.1; -; mRNA.
PIR; S23727; S23727.
RefSeq; NP_199326.1; NM_123881.4.
UniGene; At.23631; -.
ProteinModelPortal; P31582; -.
SMR; P31582; -.
BioGrid; 19798; 9.
IntAct; P31582; 12.
STRING; 3702.AT5G45130.1; -.
PaxDb; P31582; -.
PRIDE; P31582; -.
EnsemblPlants; AT5G45130.1; AT5G45130.1; AT5G45130.
GeneID; 834549; -.
Gramene; AT5G45130.1; AT5G45130.1; AT5G45130.
KEGG; ath:AT5G45130; -.
Araport; AT5G45130; -.
TAIR; locus:2153202; AT5G45130.
eggNOG; KOG0092; Eukaryota.
eggNOG; ENOG410YCCP; LUCA.
HOGENOM; HOG000233968; -.
InParanoid; P31582; -.
OMA; KCDLSDA; -.
OrthoDB; EOG09360MTI; -.
PhylomeDB; P31582; -.
Reactome; R-ATH-6798695; Neutrophil degranulation.
Reactome; R-ATH-8873719; RAB geranylgeranylation.
Reactome; R-ATH-8876198; RAB GEFs exchange GTP for GDP on RABs.
PRO; PR:P31582; -.
Proteomes; UP000006548; Chromosome 5.
ExpressionAtlas; P31582; baseline and differential.
Genevisible; P31582; AT.
GO; GO:0030139; C:endocytic vesicle; IBA:GO_Central.
GO; GO:0005783; C:endoplasmic reticulum; IDA:TAIR.
GO; GO:0005768; C:endosome; IBA:GO_Central.
GO; GO:0031902; C:late endosome membrane; IEA:UniProtKB-SubCell.
GO; GO:0005774; C:vacuolar membrane; IMP:UniProtKB.
GO; GO:0005525; F:GTP binding; ISS:TAIR.
GO; GO:0003924; F:GTPase activity; IEA:InterPro.
GO; GO:0015031; P:protein transport; IEA:UniProtKB-KW.
GO; GO:0007034; P:vacuolar transport; IMP:UniProtKB.
InterPro; IPR027417; P-loop_NTPase.
InterPro; IPR005225; Small_GTP-bd_dom.
InterPro; IPR001806; Small_GTPase.
Pfam; PF00071; Ras; 1.
SUPFAM; SSF52540; SSF52540; 1.
TIGRFAMs; TIGR00231; small_GTP; 1.
PROSITE; PS51419; RAB; 1.
1: Evidence at protein level;
Complete proteome; Endosome; GTP-binding; Lipoprotein; Membrane;
Nucleotide-binding; Prenylation; Protein transport;
Reference proteome; Transport.
CHAIN 1 200 Ras-related protein RABF2a.
/FTId=PRO_0000121277.
NP_BIND 17 25 GTP. {ECO:0000250|UniProtKB:Q9SN68}.
NP_BIND 65 69 GTP. {ECO:0000250|UniProtKB:Q9SN68}.
NP_BIND 123 126 GTP. {ECO:0000250|UniProtKB:Q9SN68}.
NP_BIND 153 154 GTP. {ECO:0000250|UniProtKB:Q9SN68}.
MOTIF 39 47 Effector region. {ECO:0000250}.
LIPID 198 198 S-geranylgeranyl cysteine. {ECO:0000250}.
LIPID 199 199 S-geranylgeranyl cysteine. {ECO:0000250}.
MUTAGEN 24 24 S->N: Dominant negative (GDP-bound form);
loss of targeting to the prevacuolar
compartment. Inhibits vacuolar
trafficking. No effect on the interaction
with VPS9A. Loss of interaction with
EREX. {ECO:0000269|PubMed:12724533,
ECO:0000269|PubMed:15509844,
ECO:0000269|PubMed:18055610,
ECO:0000269|PubMed:21899678,
ECO:0000269|PubMed:27288222}.
MUTAGEN 42 42 T->A: Loss of targeting to the
prevacuolar compartment, but no effect on
the vacuolar trafficking.
{ECO:0000269|PubMed:12724533,
ECO:0000269|PubMed:15509844}.
MUTAGEN 69 69 Q->L: Constitutively active (GTP-bound
form); no effect on the targeting to the
prevacuolar compartment. Loss of
interaction with VPS9A.
{ECO:0000269|PubMed:15509844,
ECO:0000269|PubMed:18055610}.
MUTAGEN 123 123 N->I: Blocks nucleotide binding; no
effect on the interaction with VPS9A.
{ECO:0000269|PubMed:18055610}.
MUTAGEN 198 199 CC->SS: Loss of targeting to the
prevacuolar compartment, but no effect on
the vacuolar trafficking.
{ECO:0000269|PubMed:12724533,
ECO:0000269|PubMed:15509844}.
SEQUENCE 200 AA; 21654 MW; 98E2ED559A59DE35 CRC64;
MASSGNKNIN AKLVLLGDVG AGKSSLVLRF VKDQFVEFQE STIGAAFFSQ TLAVNDATVK
FEIWDTAGQE RYHSLAPMYY RGAAAAIIVF DITNQASFER AKKWVQELQA QGNPNMVMAL
AGNKADLLDA RKVSAEEAEI YAQENSLFFM ETSAKTATNV KDIFYEIAKR LPRVQPAENP
TGMVLPNGPG ATAVSSSCCA


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