PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

C2H2

Protein Properties

Length: 521aa MW: 57535.1 Da PI: 9.1016

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc09g074780.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.5e-05	76	98	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Solyc09g074780.2.1 76 FVCEICNKGFQRDQNLQLHRRGH 98 89*******************88 PP
2	zf-C2H2	15.6	4.7e-05	152	174	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ Solyc09g074780.2.1 152 WKCDKCSKKYAVQSDWKAHQKTC 174 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.7E-5	75	98	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.05E-8	75	98	No hit	No description
PROSITE profile	PS50157	10.949	76	98	IPR007087	Zinc finger, C2H2
Pfam	PF12171	8.3E-5	76	98	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	76	98	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	78	98	IPR007087	Zinc finger, C2H2
SMART	SM00355	70	117	147	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-5	140	173	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.05E-8	147	173	No hit	No description
SMART	SM00355	94	152	172	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 521 aa Download sequence Send to blast
MSNISGEEGS FSSGEEAHLH TSNNNISSIT TSNGSTSQSQ QQQPLAKKKR NLPGNPDPNA 60 EVVALSPTTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTA EVKKRVYICP 120 EPTCVHHNPS RALGDLTGIK KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK 180 CDCGTIFSRR DSFITHRAFC DALAEENNKV NQGLMNNNME HNMHSGQMHE IMSSNASLGL 240 SEFNNFDPKN SLKALPQELL PIPFKSMTNN MAPGGMFSIT SGNLFGNSPR SVASSSSGLQ 300 LSSNIPSNFN YLQDNGKNRV AQGQGQLSSV PMSATALLQK AAQMGATASS SINSPMMQKS 360 FVTSAMAGPD ISITRPSPNY DNFQMQQDSN NHQSQSQNQN LAAVINDMGI YSGILMSNDQ 420 NNDGGYIKNV TEVLDRDNHN HSTNDRVRNQ TMMVQNGSND MLTVDFLGIG GASRAPISNL 480 QEQRRFEAAI NQQRLQASSS FHHQQNINHN SGLEKPIWDV *

Sequence ? help Back to Top

Protein Sequence Length: 521 aa Download sequence Send to blast

MSNISGEEGS FSSGEEAHLH TSNNNISSIT TSNGSTSQSQ QQQPLAKKKR NLPGNPDPNA  60
EVVALSPTTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTA EVKKRVYICP  120
EPTCVHHNPS RALGDLTGIK KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK  180
CDCGTIFSRR DSFITHRAFC DALAEENNKV NQGLMNNNME HNMHSGQMHE IMSSNASLGL  240
SEFNNFDPKN SLKALPQELL PIPFKSMTNN MAPGGMFSIT SGNLFGNSPR SVASSSSGLQ  300
LSSNIPSNFN YLQDNGKNRV AQGQGQLSSV PMSATALLQK AAQMGATASS SINSPMMQKS  360
FVTSAMAGPD ISITRPSPNY DNFQMQQDSN NHQSQSQNQN LAAVINDMGI YSGILMSNDQ  420
NNDGGYIKNV TEVLDRDNHN HSTNDRVRNQ TMMVQNGSND MLTVDFLGIG GASRAPISNL  480
QEQRRFEAAI NQQRLQASSS FHHQQNINHN SGLEKPIWDV *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-35	148	218	3	72	Zinc finger protein JACKDAW
5b3h_F	6e-35	148	218	3	72	Zinc finger protein JACKDAW
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269\|PubMed:25035403}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc09g074780.2.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004247541.1	0.0	protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-112	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A3Q7I6R1	0.0	A0A3Q7I6R1_SOLLC; Uncharacterized protein
STRING	Solyc09g074780.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44160.1	1e-101	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Solyc09g074780.2.1
Entrez Gene	101259784

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]