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

RrC4370_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 260aa MW: 29279.7 Da PI: 10.2932

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4370_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.3	6.2e-06	55	77	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H RrC4370_p1 55 FVCEICNKGFQRDQNLQLHRRGH 77 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	7.2E-6	54	77	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.09E-7	54	77	No hit	No description
PROSITE profile	PS50157	10.949	55	77	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.5E-5	55	77	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	55	77	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	57	77	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	96	126	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.1E-4	119	152	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.09E-7	126	151	No hit	No description
SMART	SM00355	180	131	151	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: 260 aa Download sequence Send to blast
MPVDLDNSST VSGEASVSST GNQQNPLPKS AAKKKRNLPG MPDPDSETLL ATNRFVCEIC 60 NKGFQRDQNL QLHRRGHNLP WKLRQKSSKE VKKKVYVCPE TSCVHHDPSR ALGDLTGIKK 120 HFCRKHGEKK WKCDKCSKRY AVVSDWKAHS KICGTKEYKC DCGTLFSRRD SFMTHRAFCD 180 ALAEESQSPE ILTRKKHVPD PESLTGSNPI PSSVAPVETR SAKIISPRAI NTKRPVFISF 240 SKYIRVSFLL TVSIRAIFIH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-32	127	186	3	62	Zinc finger protein JACKDAW
5b3h_F	2e-32	127	186	3	62	Zinc finger protein JACKDAW
Search in ModeBase

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}.

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	AK353210	1e-146	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_018441934.1	1e-160	PREDICTED: protein indeterminate-domain 2
Swissprot	Q9SCQ6	1e-129	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A3P6GJD5	1e-146	A0A3P6GJD5_BRAOL; Uncharacterized protein
STRING	Bo8g080100.1	1e-144	(Brassica oleracea)

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	1e-114	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]