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

Vradi08g10050.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

C2H2

Protein Properties

Length: 515aa MW: 56806.4 Da PI: 8.4457

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi08g10050.1	genome	SNU	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	65	87	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Vradi08g10050.1 65 FVCEICNKGFQRDQNLQLHRRGH 87 89*******************88 PP
2	zf-C2H2	12.9	0.00033	141	163	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Vradi08g10050.1 141 WKCDKCSKRYAVQSDWKAHHKTC 163 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.92E-7	64	87	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	64	87	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.949	65	87	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	65	87	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	8.2E-5	65	87	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	67	87	IPR007087	Zinc finger, C2H2
SMART	SM00355	75	106	136	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	8.3E-5	129	162	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.92E-7	136	161	No hit	No description
SMART	SM00355	120	141	161	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: 515 aa Download sequence Send to blast
MSKISGDEGS FSSANSVEEV HEESEQQQPQ KRHGSSSGAC NTNRSNPNAE VIALSPTTLM 60 ATNRFVCEIC NKGFQRDQNL QLHRRGHNLP WKLRQRASNE VKKRVYVCPE PSCVHHNPAR 120 ALGDLTGIKK HYSRKHGEKK WKCDKCSKRY AVQSDWKAHH KTCGTREYKC DCGTIFARRD 180 SFITHRAFCD ALTEENNRVN PSLTSGAGMA PSLQNELQEL MATMPLSTSP NNVVPEFNNN 240 YESSKRPLKS LSQEHLVPMP FKSMSMRGCM SSTTSGTLFG GPKNMSLPSS STLQLSSNNS 300 HTFNYFQDTK NSAASAHMSA TALLQKAAQM GAAASNNSIN SPTMMQKSFV SGIIGPSSYD 360 PFHHPHPDDQ SHMPGIRDAG AFTNQFFHKG QQEMSAILDS NTSDMGILGA MFMGSDHNEG 420 VMKNVEQEVG ASTSSFIRRR DVSEGNPTGA SRIHDFLGVG GATSRAGSLH EPQKQQQQSF 480 ELEALTHQRL QMINHFHHHL PHGDSAMEKS VWDI*

Sequence ? help Back to Top

Protein Sequence Length: 515 aa Download sequence Send to blast

MSKISGDEGS FSSANSVEEV HEESEQQQPQ KRHGSSSGAC NTNRSNPNAE VIALSPTTLM  60
ATNRFVCEIC NKGFQRDQNL QLHRRGHNLP WKLRQRASNE VKKRVYVCPE PSCVHHNPAR  120
ALGDLTGIKK HYSRKHGEKK WKCDKCSKRY AVQSDWKAHH KTCGTREYKC DCGTIFARRD  180
SFITHRAFCD ALTEENNRVN PSLTSGAGMA PSLQNELQEL MATMPLSTSP NNVVPEFNNN  240
YESSKRPLKS LSQEHLVPMP FKSMSMRGCM SSTTSGTLFG GPKNMSLPSS STLQLSSNNS  300
HTFNYFQDTK NSAASAHMSA TALLQKAAQM GAAASNNSIN SPTMMQKSFV SGIIGPSSYD  360
PFHHPHPDDQ SHMPGIRDAG AFTNQFFHKG QQEMSAILDS NTSDMGILGA MFMGSDHNEG  420
VMKNVEQEVG ASTSSFIRRR DVSEGNPTGA SRIHDFLGVG GATSRAGSLH EPQKQQQQSF  480
ELEALTHQRL QMINHFHHHL PHGDSAMEKS VWDI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	137	200	3	66	Zinc finger protein JACKDAW
5b3h_F	1e-34	137	200	3	66	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi08g10050.1

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	AP015041	0.0	AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014513261.1	0.0	protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-103	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A1S3V4I7	0.0	A0A1S3V4I7_VIGRR; protein indeterminate-domain 2-like
STRING	XP_007163889.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2192	30	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-100	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]