PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

OB11G10730.1

Organism

Oryza brachyantha

Taxonomic ID

4533

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

WRKY

Protein Properties

Length: 935aa MW: 102958 Da PI: 6.9606

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB11G10730.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	64.6	1.6e-20	141	202	2	59
--SS-EEEEEEE--TT-SS-EEEEEE-ST...T---EEEEEE-SSS.TTEEEEEEES--SS- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsa...gCpvkkkversaed.pkvveitYegeHnhe 59 +Dgy+WrKYG K+++g++f+rsY+rCt++ gC+++k++++++++ p +++tY+++H+++ OB11G10730.1 141 EDGYQWRKYGEKKIQGTDFTRSYFRCTYRddkGCQATKQIQQKDNNyPPNFQVTYSNDHTCN 202 8*************************99999***9988764789********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF118290	3.4E-19	134	202	IPR003657	WRKY domain
Gene3D	G3DSA:2.20.25.80	2.8E-21	136	203	IPR003657	WRKY domain
SMART	SM00774	4.8E-29	140	203	IPR003657	WRKY domain
PROSITE profile	PS50811	16.203	141	199	IPR003657	WRKY domain
Pfam	PF03106	3.4E-22	141	201	IPR003657	WRKY domain
CDD	cd02125	4.76E-74	363	489	No hit	No description
Pfam	PF02225	1.4E-9	400	475	IPR003137	PA domain
SuperFamily	SSF52025	3.27E-6	407	485	No hit	No description
Gene3D	G3DSA:3.50.30.30	1.2E-15	407	489	No hit	No description
Gene3D	G3DSA:3.40.30.10	0.001	596	708	IPR012336	Thioredoxin-like fold
Gene3D	G3DSA:2.10.25.10	5.6E-7	823	867	No hit	No description
CDD	cd00054	1.23E-4	825	856	No hit	No description
SMART	SM00179	3.8E-4	825	867	IPR001881	EGF-like calcium-binding domain
PROSITE pattern	PS01187	0	825	851	IPR018097	EGF-like calcium-binding, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006623	Biological Process	protein targeting to vacuole
GO:0006896	Biological Process	Golgi to vacuole transport
GO:0005770	Cellular Component	late endosome
GO:0005783	Cellular Component	endoplasmic reticulum
GO:0005802	Cellular Component	trans-Golgi network
GO:0005886	Cellular Component	plasma membrane
GO:0016021	Cellular Component	integral component of membrane
GO:0017119	Cellular Component	Golgi transport complex
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005509	Molecular Function	calcium ion binding
GO:0009940	Molecular Function	amino-terminal vacuolar sorting propeptide binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 935 aa Download sequence Send to blast
MAAATAAAAV AHQAGDDEVA MKEGAQVYEL IKTPQPLLLL HANSQQQQQL AYSLLTEAMR 60 ALNVALSVMK HLPSSPAPAT IPVNMIKPEV TPANSNAATA ADGGDGQVGG GKATRRSAAK 120 RRRINGADKS SWLQLTTVPH EDGYQWRKYG EKKIQGTDFT RSYFRCTYRD DKGCQATKQI 180 QQKDNNYPPN FQVTYSNDHT CNSCTDRVIN SSNHPALHNL AANPIGRPDD DDDTICNKMI 240 KQEPQVAWLP PPLTTISNSL DGTPALHVYQ ADEVPPSSKI YCSDSVAGIS SSLQQPSPAA 300 PLPIRSSNCK VYSWIGAWGS DPPARWAALR RPACRGGFVV EKNSLRVTAP SDLKGTYECA 360 IGNFGVPQYG GTMVGVVAYP KANKKACKSF DDFDISYKPK PGSLPTFLLV DRGDCFFTKK 420 AWNAQSAGAA AILVADDKTE PLITMDTPEE SGNTDYLENI TIPSALITKS FGDKLKKAID 480 NGDMVNVNLD WRESLPHPDE RVEYEFWTNS NDECGPKCDS QIDFVKSFKG AAQVLEKKGY 540 TQFTPHYITW YCPDSFILSK QCKSQCINHG RYCAPDPEQD FSKGYDGKDV VVQNLRQVCV 600 YKVAKEHGKP WLWWDYVTDF AIRCPMKEKK YTKECADGVI KALGLDHKAI DKCIGDPEAD 660 KENPVLKAEQ DAQIGKGSRG DVTILPTLVI NNRQYRGKLD KGAVLKAICA GFRETTEPAV 720 CLSEDIQTNE CLENNGGCWQ DKVANISACK DTFRGRVCEC PVVKGVQFVG DGYTHCEASG 780 SGRCEINNGG CWKEARHGRT YSACTNDGCK CPDGFKGDGV HKCEDIDECK ERSACQCKEC 840 KCKNTWGSYE CGCSGGLLYM KEHDTCISKS AATEVGWNFL WVIFFGLVVA GIAGYALYKY 900 RIRRYMDSEI RAIMAQYMPL DNQGEVPNHS HHIEL

Sequence ? help Back to Top

Protein Sequence Length: 935 aa Download sequence Send to blast

MAAATAAAAV AHQAGDDEVA MKEGAQVYEL IKTPQPLLLL HANSQQQQQL AYSLLTEAMR  60
ALNVALSVMK HLPSSPAPAT IPVNMIKPEV TPANSNAATA ADGGDGQVGG GKATRRSAAK  120
RRRINGADKS SWLQLTTVPH EDGYQWRKYG EKKIQGTDFT RSYFRCTYRD DKGCQATKQI  180
QQKDNNYPPN FQVTYSNDHT CNSCTDRVIN SSNHPALHNL AANPIGRPDD DDDTICNKMI  240
KQEPQVAWLP PPLTTISNSL DGTPALHVYQ ADEVPPSSKI YCSDSVAGIS SSLQQPSPAA  300
PLPIRSSNCK VYSWIGAWGS DPPARWAALR RPACRGGFVV EKNSLRVTAP SDLKGTYECA  360
IGNFGVPQYG GTMVGVVAYP KANKKACKSF DDFDISYKPK PGSLPTFLLV DRGDCFFTKK  420
AWNAQSAGAA AILVADDKTE PLITMDTPEE SGNTDYLENI TIPSALITKS FGDKLKKAID  480
NGDMVNVNLD WRESLPHPDE RVEYEFWTNS NDECGPKCDS QIDFVKSFKG AAQVLEKKGY  540
TQFTPHYITW YCPDSFILSK QCKSQCINHG RYCAPDPEQD FSKGYDGKDV VVQNLRQVCV  600
YKVAKEHGKP WLWWDYVTDF AIRCPMKEKK YTKECADGVI KALGLDHKAI DKCIGDPEAD  660
KENPVLKAEQ DAQIGKGSRG DVTILPTLVI NNRQYRGKLD KGAVLKAICA GFRETTEPAV  720
CLSEDIQTNE CLENNGGCWQ DKVANISACK DTFRGRVCEC PVVKGVQFVG DGYTHCEASG  780
SGRCEINNGG CWKEARHGRT YSACTNDGCK CPDGFKGDGV HKCEDIDECK ERSACQCKEC  840
KCKNTWGSYE CGCSGGLLYM KEHDTCISKS AATEVGWNFL WVIFFGLVVA GIAGYALYKY  900
RIRRYMDSEI RAIMAQYMPL DNQGEVPNHS HHIEL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4tjv_A	2e-71	338	498	4	165	Vacuolar-sorting receptor 1
4tjx_A	2e-71	338	498	4	165	Vacuolar-sorting receptor 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	119	123	KRRRI

Functional Description ? help Back to Top
Source	Description
UniProt	Vacuolar-sorting receptor (VSR) involved in clathrin-coated vesicles sorting from Golgi apparatus to vacuoles. Required for the sorting of 12S globulin, 2S albumin and maybe other seed storage proteins to protein storage vacuoles (PSVs) in seeds. May also be implicated in targeting N-terminal propeptide containing proteins to lytic vacuoles. {ECO:0000269\|PubMed:10871276, ECO:0000269\|PubMed:14657332}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB11G10730.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Slightly induced by water deficit. {ECO:0000269\|PubMed:10561538}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK066617	0.0	AK066617.1 Oryza sativa Japonica Group cDNA clone:J013073B02, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006663158.1	0.0	PREDICTED: vacuolar-sorting receptor 1-like
Swissprot	P93026	0.0	VSR1_ARATH; Vacuolar-sorting receptor 1
TrEMBL	J3N5I7	0.0	J3N5I7_ORYBR; Uncharacterized protein
STRING	OB11G10730.1	0.0	(Oryza brachyantha)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G11070.2	3e-18	WRKY family protein

Publications ? help Back to Top
Zheng H,von Mollard GF,Kovaleva V,Stevens TH,Raikhel NV The plant vesicle-associated SNARE AtVTI1a likely mediates vesicle transport from the trans-Golgi network to the prevacuolar compartment. Mol. Biol. Cell, 1999. 10(7): p. 2251-64 [PMID:10397763] Sanderfoot AA,Kovaleva V,Zheng H,Raikhel NV The t-SNARE AtVAM3p resides on the prevacuolar compartment in Arabidopsis root cells. Plant Physiol., 1999. 121(3): p. 929-38 [PMID:10557242] Laval V, et al. A family of Arabidopsis plasma membrane receptors presenting animal beta-integrin domains. Biochim. Biophys. Acta, 1999. 1435(1-2): p. 61-70 [PMID:10561538] Ahmed SU, et al. The plant vacuolar sorting receptor AtELP is involved in transport of NH(2)-terminal propeptide-containing vacuolar proteins in Arabidopsis thaliana. J. Cell Biol., 2000. 149(7): p. 1335-44 [PMID:10871276] Bassham DC,Sanderfoot AA,Kovaleva V,Zheng H,Raikhel NV AtVPS45 complex formation at the trans-Golgi network. Mol. Biol. Cell, 2000. 11(7): p. 2251-65 [PMID:10888666] Gentzbittel L, et al. A bacterial artificial chromosome (BAC) library for sunflower, and identification of clones containing genes for putative transmembrane receptors. Mol. Genet. Genomics, 2002. 266(6): p. 979-87 [PMID:11862492] Li YB, et al. BP-80 and homologs are concentrated on post-Golgi, probable lytic prevacuolar compartments. Plant Cell Physiol., 2002. 43(7): p. 726-42 [PMID:12154135] Laval V, et al. Seed germination is blocked in Arabidopsis putative vacuolar sorting receptor (atbp80) antisense transformants. J. Exp. Bot., 2003. 54(381): p. 213-21 [PMID:12493849] Shimada T, et al. Vacuolar sorting receptor for seed storage proteins in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2003. 100(26): p. 16095-100 [PMID:14657332] Rogers SW,Youn B,Rogers JC,Kang C Purification, crystallization and preliminary crystallographic studies of the ligand-binding domain of a plant vacuolar sorting receptor. Acta Crystallogr. D Biol. Crystallogr., 2004. 60(Pt 11): p. 2028-30 [PMID:15502317] daSilva LL, et al. Receptor salvage from the prevacuolar compartment is essential for efficient vacuolar protein targeting. Plant Cell, 2005. 17(1): p. 132-48 [PMID:15632053] Song J,Lee MH,Lee GJ,Yoo CM,Hwang I Arabidopsis EPSIN1 plays an important role in vacuolar trafficking of soluble cargo proteins in plant cells via interactions with clathrin, AP-1, VTI11, and VSR1. Plant Cell, 2006. 18(9): p. 2258-74 [PMID:16905657] Foresti O,daSilva LL,Denecke J Overexpression of the Arabidopsis syntaxin PEP12/SYP21 inhibits transport from the prevacuolar compartment to the lytic vacuole in vivo. Plant Cell, 2006. 18(9): p. 2275-93 [PMID:16935987] Otegui MS,Herder R,Schulze J,Jung R,Staehelin LA The proteolytic processing of seed storage proteins in Arabidopsis embryo cells starts in the multivesicular bodies. Plant Cell, 2006. 18(10): p. 2567-81 [PMID:17012602] Fuji K, et al. Arabidopsis vacuolar sorting mutants (green fluorescent seed) can be identified efficiently by secretion of vacuole-targeted green fluorescent protein in their seeds. Plant Cell, 2007. 19(2): p. 597-609 [PMID:17293568] Craddock CP, et al. Lack of a vacuolar sorting receptor leads to non-specific missorting of soluble vacuolar proteins in Arabidopsis seeds. Traffic, 2008. 9(3): p. 408-16 [PMID:18194392] Niemes S, et al. Sorting of plant vacuolar proteins is initiated in the ER. Plant J., 2010. 62(4): p. 601-14 [PMID:20149141] Kim H, et al. Homomeric interaction of AtVSR1 is essential for its function as a vacuolar sorting receptor. Plant Physiol., 2010. 154(1): p. 134-48 [PMID:20625000] Zouhar J,Muñoz A,Rojo E Functional specialization within the vacuolar sorting receptor family: VSR1, VSR3 and VSR4 sort vacuolar storage cargo in seeds and vegetative tissues. Plant J., 2010. 64(4): p. 577-88 [PMID:20807215] Lee Y, et al. Functional identification of sorting receptors involved in trafficking of soluble lytic vacuolar proteins in vegetative cells of Arabidopsis. Plant Physiol., 2013. 161(1): p. 121-33 [PMID:23175753] Kang H, et al. Trafficking of vacuolar proteins: the crucial role of Arabidopsis vacuolar protein sorting 29 in recycling vacuolar sorting receptor. Plant Cell, 2012. 24(12): p. 5058-73 [PMID:23263768] Xiang L,Van den Ende W Trafficking of plant vacuolar invertases: from a membrane-anchored to a soluble status. Understanding sorting information in their complex N-terminal motifs. Plant Cell Physiol., 2013. 54(8): p. 1263-77 [PMID:23737500] Nikolovski N,Shliaha PV,Gatto L,Dupree P,Lilley KS Label-free protein quantification for plant Golgi protein localization and abundance. Plant Physiol., 2014. 166(2): p. 1033-43 [PMID:25122472] Luo F, et al. How vacuolar sorting receptor proteins interact with their cargo proteins: crystal structures of apo and cargo-bound forms of the protease-associated domain from an Arabidopsis vacuolar sorting receptor. Plant Cell, 2014. 26(9): p. 3693-708 [PMID:25271241] Shen J,Ding Y,Gao C,Rojo E,Jiang L N-linked glycosylation of AtVSR1 is important for vacuolar protein sorting in Arabidopsis. Plant J., 2014. 80(6): p. 977-92 [PMID:25293377] Wang ZY, et al. The Arabidopsis Vacuolar Sorting Receptor1 is required for osmotic stress-induced abscisic acid biosynthesis. Plant Physiol., 2015. 167(1): p. 137-52 [PMID:25416474] Shirakawa M,Ueda H,Shimada T,Kohchi T,Hara-Nishimura I Myrosin cell development is regulated by endocytosis machinery and PIN1 polarity in leaf primordia of Arabidopsis thaliana. Plant Cell, 2014. 26(11): p. 4448-61 [PMID:25428982] Fuji K, et al. The Adaptor Complex AP-4 Regulates Vacuolar Protein Sorting at the trans-Golgi Network by Interacting with VACUOLAR SORTING RECEPTOR1. Plant Physiol., 2016. 170(1): p. 211-9 [PMID:26546666] Ahmed SU,Bar-Peled M,Raikhel NV Cloning and subcellular location of an Arabidopsis receptor-like protein that shares common features with protein-sorting receptors of eukaryotic cells. Plant Physiol., 1997. 114(1): p. 325-36 [PMID:9159954] Paris N, et al. Molecular cloning and further characterization of a probable plant vacuolar sorting receptor. Plant Physiol., 1997. 115(1): p. 29-39 [PMID:9306690] Bassham DC,Raikhel NV An Arabidopsis VPS45p homolog implicated in protein transport to the vacuole. Plant Physiol., 1998. 117(2): p. 407-15 [PMID:9625693] Sanderfoot AA, et al. A putative vacuolar cargo receptor partially colocalizes with AtPEP12p on a prevacuolar compartment in Arabidopsis roots. Proc. Natl. Acad. Sci. U.S.A., 1998. 95(17): p. 9920-5 [PMID:9707576]