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

GSVIVT01014276001

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

HD-ZIP

Protein Properties

Length: 450aa MW: 51159.2 Da PI: 5.613

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01014276001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	53.4	4.4e-17	10	64	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ ++t++q++ Le+ F +++ e++ +LA++lg++ rqV +W+qN+Ra++k GSVIVT01014276001 10 KHKKRLTQDQVRLLETSFDHGKKLEPERKLHLARELGVPPRQVAIWYQNKRARWK 64 67889*************************************************9 PP
2	HD-ZIP_I/II	106.4	2.1e-34	11	102	2	93
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +k+rl+++qv+lLE+sF++ +kLeperK +lareLg+ prqva+W+qn+RAR+kt++lE dy++++ ++++ e++rLe++v +L+ el++ GSVIVT01014276001 11 HKKRLTQDQVRLLETSFDHGKKLEPERKLHLARELGVPPRQVAIWYQNKRARWKTQNLELDYNVIRVRLEHALIEKRRLERDVIRLQGELEK 102 79*************************************************************************************99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	16.244	6	66	IPR001356	Homeobox domain
SuperFamily	SSF46689	6.42E-17	8	75	IPR009057	Homeodomain-like
SMART	SM00389	7.4E-16	8	70	IPR001356	Homeobox domain
CDD	cd00086	8.87E-14	10	67	No hit	No description
Pfam	PF00046	1.9E-14	10	64	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	5.5E-18	12	73	IPR009057	Homeodomain-like
PROSITE pattern	PS00027	0	41	64	IPR017970	Homeobox, conserved site
Pfam	PF11789	8.2E-13	335	397	IPR004181	Zinc finger, MIZ-type
SuperFamily	SSF57850	1.41E-5	350	397	No hit	No description
Gene3D	G3DSA:3.30.40.10	7.9E-6	350	394	IPR013083	Zinc finger, RING/FYVE/PHD-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006974	Biological Process	cellular response to DNA damage stimulus
GO:0008284	Biological Process	positive regulation of cell proliferation
GO:0010082	Biological Process	regulation of root meristem growth
GO:0016925	Biological Process	protein sumoylation
GO:0032876	Biological Process	negative regulation of DNA endoreduplication
GO:0045931	Biological Process	positive regulation of mitotic cell cycle
GO:0060250	Biological Process	germ-line stem-cell niche homeostasis
GO:0080038	Biological Process	positive regulation of cytokinin-activated signaling pathway
GO:0005634	Cellular Component	nucleus
GO:0008270	Molecular Function	zinc ion binding
GO:0019789	Molecular Function	SUMO transferase activity
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 450 aa Download sequence Send to blast
MDAFHSQHQK HKKRLTQDQV RLLETSFDHG KKLEPERKLH LARELGVPPR QVAIWYQNKR 60 ARWKTQNLEL DYNVIRVRLE HALIEKRRLE RDVIRLQGEL EKAHEMLHAL NYANPNPPPI 120 VSTVLSSISC DEGGSTLENN EEFQFENLYA SLMGIYGSWA FGLKCKSPFQ VHSGSKRCVS 180 VRFEELEQWR RPPLLLPATM ASPEDSGTPL PLSTPITNLS LLKFRKAMIL MKEVAVDLER 240 DGQSQMVKEL EDAVVELLGT SEDCTQFSAA IQSVGNEHQP RPELTDFKKL FEDEVAKLKA 300 SSSFAPQSHP LLRQFREAVW NVHHAGQPMP GDEQEDIVMT STQCNLLNIT CPLSGRPVTE 360 LADPVRSVDC KHIYEKKAIL HYIKSKHGRA QCPVAACPKI LQAERVVCDA LLQIEIDEMK 420 SMSKQPGRTD VIEDFTELDD DDDEEEEDD*

Sequence ? help Back to Top

Protein Sequence Length: 450 aa Download sequence Send to blast

MDAFHSQHQK HKKRLTQDQV RLLETSFDHG KKLEPERKLH LARELGVPPR QVAIWYQNKR  60
ARWKTQNLEL DYNVIRVRLE HALIEKRRLE RDVIRLQGEL EKAHEMLHAL NYANPNPPPI  120
VSTVLSSISC DEGGSTLENN EEFQFENLYA SLMGIYGSWA FGLKCKSPFQ VHSGSKRCVS  180
VRFEELEQWR RPPLLLPATM ASPEDSGTPL PLSTPITNLS LLKFRKAMIL MKEVAVDLER  240
DGQSQMVKEL EDAVVELLGT SEDCTQFSAA IQSVGNEHQP RPELTDFKKL FEDEVAKLKA  300
SSSFAPQSHP LLRQFREAVW NVHHAGQPMP GDEQEDIVMT STQCNLLNIT CPLSGRPVTE  360
LADPVRSVDC KHIYEKKAIL HYIKSKHGRA QCPVAACPKI LQAERVVCDA LLQIEIDEMK  420
SMSKQPGRTD VIEDFTELDD DDDEEEEDD*

Functional Description ? help Back to Top
Source	Description
UniProt	E3 SUMO-protein ligase that modulates cell cycle progression and functions as a repressor of endocycle onset in meristems. May function downstream of the meristem patterning transcription factors PLETHORA 1 and 2 (PLT1 and PLT2) in root meristem development. Modulates the expression of the mitotic cyclins CYCB1-1 and CYCB1-2 and cyclin-dependent kinases CDKB1-1 and CDKB2-1 in root meristem. Involved in cytokinin signaling in root development. {ECO:0000269\|PubMed:19666737, ECO:0000269\|PubMed:19682286}.

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	AM459856	0.0	AM459856.2 Vitis vinifera contig VV78X094534.23, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010644170.1	0.0	PREDICTED: E3 SUMO-protein ligase MMS21
Swissprot	Q8GYH7	5e-95	NSE2_ARATH; E3 SUMO-protein ligase MMS21
TrEMBL	F6H212	0.0	F6H212_VITVI; Uncharacterized protein
STRING	VIT_19s0014g02100.t01	0.0	(Vitis vinifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G53980.1	4e-30	homeobox protein 52

Link Out ? help Back to Top
Phytozome	GSVIVT01014276001

Publications ? help Back to Top
Lee J, et al. Salicylic acid-mediated innate immunity in Arabidopsis is regulated by SIZ1 SUMO E3 ligase. Plant J., 2007. 49(1): p. 79-90 [PMID:17163880] Huang L, et al. The Arabidopsis SUMO E3 ligase AtMMS21, a homologue of NSE2/MMS21, regulates cell proliferation in the root. Plant J., 2009. 60(4): p. 666-78 [PMID:19682286] Zhang S,Qi Y,Yang C Arabidopsis SUMO E3 ligase AtMMS21 regulates root meristem development. Plant Signal Behav, 2010. 5(1): p. 53-5 [PMID:20592809] Ishida T,Yoshimura M,Miura K,Sugimoto K MMS21/HPY2 and SIZ1, two Arabidopsis SUMO E3 ligases, have distinct functions in development. PLoS ONE, 2012. 7(10): p. e46897 [PMID:23056518] Zhang S,Qi Y,Liu M,Yang C SUMO E3 ligase AtMMS21 regulates drought tolerance in Arabidopsis thaliana(F). J Integr Plant Biol, 2013. 55(1): p. 83-95 [PMID:23231763] Xu P, et al. AtMMS21, an SMC5/6 complex subunit, is involved in stem cell niche maintenance and DNA damage responses in Arabidopsis roots. Plant Physiol., 2013. 161(4): p. 1755-68 [PMID:23426194] Okushima Y,Shimizu K,Ishida T,Sugimoto K,Umeda M Differential regulation of B2-type CDK accumulation in Arabidopsis roots. Plant Cell Rep., 2014. 33(7): p. 1033-40 [PMID:24573537] Yuan D, et al. AtMMS21 regulates DNA damage response and homologous recombination repair in Arabidopsis. DNA Repair (Amst.), 2014. 21: p. 140-7 [PMID:24795278] Liu M, et al. SUMO E3 ligase AtMMS21 is required for normal meiosis and gametophyte development in Arabidopsis. BMC Plant Biol., 2014. 14: p. 153 [PMID:24893774] Kwak JS,Son GH,Kim SI,Song JT,Seo HS Arabidopsis HIGH PLOIDY2 Sumoylates and Stabilizes Flowering Locus C through Its E3 Ligase Activity. Front Plant Sci, 2016. 7: p. 530 [PMID:27148346] Liu Y, et al. The Arabidopsis SUMO E3 Ligase AtMMS21 Dissociates the E2Fa/DPa Complex in Cell Cycle Regulation. Plant Cell, 2016. 28(9): p. 2225-2237 [PMID:27492969] Liu L, et al. Transcriptional Gene Silencing Maintained by OTS1 SUMO Protease Requires a DNA-Dependent Polymerase V-Dependent Pathway. Plant Physiol., 2017. 173(1): p. 655-667 [PMID:27852949] Zhang J, et al. A SUMO Ligase AtMMS21 Regulates the Stability of the Chromatin Remodeler BRAHMA in Root Development. Plant Physiol., 2017. 173(3): p. 1574-1582 [PMID:28115583] Yu M, et al. A SUMO ligase AtMMS21 regulates activity of the 26S proteasome in root development. Plant Sci., 2019. 280: p. 314-320 [PMID:30824010]