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

Csa09g053680.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

C2H2

Protein Properties

Length: 426aa MW: 45276.3 Da PI: 10.14

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa09g053680.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.5	1.2e-05	63	85	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Csa09g053680.1 63 FVCEICNKGFQRDQNLQLHRRGH 85 89*******************88 PP
2	zf-C2H2	11.5	0.00093	139	161	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H + + Csa09g053680.1 139 WKCDKCSKKYAVQSDWKAHSKIC 161 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.3E-5	62	85	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.93E-7	62	85	No hit	No description
PROSITE profile	PS50157	10.949	63	85	IPR007087	Zinc finger, C2H2
Pfam	PF12171	6.5E-5	63	85	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	63	85	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	65	85	IPR007087	Zinc finger, C2H2
SMART	SM00355	280	104	134	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.5E-4	127	160	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.93E-7	134	159	No hit	No description
SMART	SM00355	150	139	159	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: 426 aa Download sequence Send to blast
MPVDLDNSST VSGEASVSIS STGNQNPLVN STGKKKRNLP GMPDPESEVI ALSPKTLLAT 60 NRFVCEICNK GFQRDQNLQL HRRGHNLPWK LRQKSSKEVR KKVYVCPEVS CVHHEPSRAL 120 GDLTGIKKHF CRKHGEKKWK CDKCSKKYAV QSDWKAHSKI CGTKEYKCDC GTLFSRRDSF 180 ITHRAFCDAL AEESARSNTH SQSKKQSPDI STRKKPIPDP NPAPVDTESA KIKSSSTLTI 240 KQSESPKTPP EIVQEVPKPT GLNVTRNGVF AGLFESSTAS PSHGSSFLGL NRFQAQPAMS 300 ATALLQKAAQ MGAASSGGSL LRGLGIVSSS SSSMDAIVPH GLGLGLPCGG ESSSGLKELM 360 MGNSSVFGPK QTTLDFLGLG RAVGNGNGPS NGLSALVGGS SGIDMATTFG SGEFSSGKDI 420 NRRKS*

Sequence ? help Back to Top

Protein Sequence Length: 426 aa Download sequence Send to blast

MPVDLDNSST VSGEASVSIS STGNQNPLVN STGKKKRNLP GMPDPESEVI ALSPKTLLAT  60
NRFVCEICNK GFQRDQNLQL HRRGHNLPWK LRQKSSKEVR KKVYVCPEVS CVHHEPSRAL  120
GDLTGIKKHF CRKHGEKKWK CDKCSKKYAV QSDWKAHSKI CGTKEYKCDC GTLFSRRDSF  180
ITHRAFCDAL AEESARSNTH SQSKKQSPDI STRKKPIPDP NPAPVDTESA KIKSSSTLTI  240
KQSESPKTPP EIVQEVPKPT GLNVTRNGVF AGLFESSTAS PSHGSSFLGL NRFQAQPAMS  300
ATALLQKAAQ MGAASSGGSL LRGLGIVSSS SSSMDAIVPH GLGLGLPCGG ESSSGLKELM  360
MGNSSVFGPK QTTLDFLGLG RAVGNGNGPS NGLSALVGGS SGIDMATTFG SGEFSSGKDI  420
NRRKS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-35	135	196	3	64	Zinc finger protein JACKDAW
5b3h_F	4e-35	135	196	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	89	101	KLRQKSSKEVRKK

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	Csa09g053680.1

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	AK226933	0.0	AK226933.1 Arabidopsis thaliana mRNA for zinc finger protein, complete cds, clone: RAFL09-26-M08.
GenBank	BT014947	0.0	BT014947.1 Arabidopsis thaliana At3g50700 gene, complete cds.
GenBank	BT015836	0.0	BT015836.1 Arabidopsis thaliana At3g50700 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010426611.1	0.0	PREDICTED: protein indeterminate-domain 2 isoform X2
Swissprot	Q9SCQ6	0.0	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	R0HJI7	0.0	R0HJI7_9BRAS; Uncharacterized protein
STRING	XP_010426610.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	0.0	indeterminate(ID)-domain 2

Publications ? help Back to Top
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]