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

Tp5g11530

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 467aa MW: 49455.1 Da PI: 10.0966

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp5g11530	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.3	1.3e-05	61	83	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Tp5g11530 61 FVCEICNKGFQRDQNLQLHRRGH 83 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	7.14E-7	60	83	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-5	60	83	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	61	83	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	61	83	IPR007087	Zinc finger, C2H2
Pfam	PF12171	7.3E-5	61	83	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	63	83	IPR007087	Zinc finger, C2H2
SMART	SM00355	270	102	132	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	7.14E-7	132	157	No hit	No description
SMART	SM00355	190	137	157	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: 467 aa Download sequence Send to blast
MPIDLDNSST VSGEASLSST GNQNPLPKSA GKKKRNLPGM PDPDSEVIAL SPKTLLATNR 60 FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QKSSKEVRKK VYVCPEISCV HHDPSRALGD 120 LTGIKKHFCR KHGEKKWKCD KCSKKYAVVS DWKAHSKICG TKEYKCDCGT LFSRRDSFIT 180 HRAFCDALAE ENARSHSHSK KQNPEVLTRK KPVLDPKSLT GANSLASSPN YAVSSAAPVE 240 TQSAKIKSPP AITIKQSESP KTPPEILQEA PKLSGLNVTR NSGFAGLFES SSASSSIFTS 300 SSSSSQSLFA PSSSIEPISL GLSTNHGSSF LCSTRFPTQP AMSATALLQK AAQMGAASSG 360 GSLLRGLGIV SSSSPSMDSI VPHGLALGLP CGGESSSGLK ELMMGNSSVF GPKQTTLDFL 420 GLGRAVGNGG DPGNGLSALI GRSGSIDMAA TFGSGEFSGK DIVRRTS

Sequence ? help Back to Top

Protein Sequence Length: 467 aa Download sequence Send to blast

MPIDLDNSST VSGEASLSST GNQNPLPKSA GKKKRNLPGM PDPDSEVIAL SPKTLLATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QKSSKEVRKK VYVCPEISCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCD KCSKKYAVVS DWKAHSKICG TKEYKCDCGT LFSRRDSFIT  180
HRAFCDALAE ENARSHSHSK KQNPEVLTRK KPVLDPKSLT GANSLASSPN YAVSSAAPVE  240
TQSAKIKSPP AITIKQSESP KTPPEILQEA PKLSGLNVTR NSGFAGLFES SSASSSIFTS  300
SSSSSQSLFA PSSSIEPISL GLSTNHGSSF LCSTRFPTQP AMSATALLQK AAQMGAASSG  360
GSLLRGLGIV SSSSPSMDSI VPHGLALGLP CGGESSSGLK ELMMGNSSVF GPKQTTLDFL  420
GLGRAVGNGG DPGNGLSALI GRSGSIDMAA TFGSGEFSGK DIVRRTS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-34	133	194	3	64	Zinc finger protein JACKDAW
5b3h_F	6e-34	133	194	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	87	99	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00403	DAP	Transfer from AT3G50700	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp5g11530

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353210	0.0	AK353210.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-D18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013599512.1	0.0	PREDICTED: protein indeterminate-domain 2
Swissprot	Q9SCQ6	0.0	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A087GWR5	0.0	A0A087GWR5_ARAAL; Uncharacterized protein
STRING	A0A087GWR5	0.0	(Arabis alpina)

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]