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

Vradi08g16580.1

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: 528aa MW: 58294.4 Da PI: 9.0561

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi08g16580.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.7e-05	59	81	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Vradi08g16580.1 59 FICEVCNKGFQREQNLQLHRRGH 81 89*******************88 PP
2	zf-C2H2	12.7	0.00039	135	157	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Vradi08g16580.1 135 WKCEKCSKKYAVQSDWKAHSKTC 157 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.42E-7	58	81	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.8E-6	58	81	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	59	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	59	81	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.5E-5	59	81	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	61	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	100	130	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.0E-5	123	156	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.42E-7	130	155	No hit	No description
SMART	SM00355	140	135	155	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: 528 aa Download sequence Send to blast
MGQKRKIILV FVVRIQFEQV IEAKGFFNNL LFVIFMGVKD PDAEVIELSP KTLMATNRFI 60 CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK STKEQKRKVY LCPEPTCVHH DPSRALGDLT 120 GIKKHYSRKH GEKKWKCEKC SKKYAVQSDW KAHSKTCGTR EYRCDCGTLF SRRDSFITHR 180 AFCDALAQES ARFPSNLNPL GSHLFGTNHT SLTLSQVGTQ LSQVQNQNQT TSNNILRLGN 240 VGAAVKFEHL IPPLNQSSFG HSPQSMPSSA FFMNDTTNQT LFEEHQSQQG PIFSNKQLHG 300 LMQLTDLHGN TNNSDSSSVA APDSNLFNLS FFPSSNGPNT IISGQFNNIS GGDHGTTPPP 360 LYVNNNPAVT DHLGSGFSSF FGDSLENVSS PHMSATVLLQ KASQMGSTTT SGGSSLLRGM 420 CSNNGSKAEN GHHHHHSLQG LMNSIANGNT SLFRNMQGNE NNLCGFHNLD ESNNKLPQNL 480 SVNFGGSDKL TLDFLGVGGM VRNMNGGFSQ REQLQQQRVM GTEFFGP*

Sequence ? help Back to Top

Protein Sequence Length: 528 aa Download sequence Send to blast

MGQKRKIILV FVVRIQFEQV IEAKGFFNNL LFVIFMGVKD PDAEVIELSP KTLMATNRFI  60
CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK STKEQKRKVY LCPEPTCVHH DPSRALGDLT  120
GIKKHYSRKH GEKKWKCEKC SKKYAVQSDW KAHSKTCGTR EYRCDCGTLF SRRDSFITHR  180
AFCDALAQES ARFPSNLNPL GSHLFGTNHT SLTLSQVGTQ LSQVQNQNQT TSNNILRLGN  240
VGAAVKFEHL IPPLNQSSFG HSPQSMPSSA FFMNDTTNQT LFEEHQSQQG PIFSNKQLHG  300
LMQLTDLHGN TNNSDSSSVA APDSNLFNLS FFPSSNGPNT IISGQFNNIS GGDHGTTPPP  360
LYVNNNPAVT DHLGSGFSSF FGDSLENVSS PHMSATVLLQ KASQMGSTTT SGGSSLLRGM  420
CSNNGSKAEN GHHHHHSLQG LMNSIANGNT SLFRNMQGNE NNLCGFHNLD ESNNKLPQNL  480
SVNFGGSDKL TLDFLGVGGM VRNMNGGFSQ REQLQQQRVM GTEFFGP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-36	131	195	3	67	Zinc finger protein JACKDAW
5b3h_F	1e-36	131	195	3	67	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi08g16580.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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_014514192.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_022641135.1	0.0	protein indeterminate-domain 5, chloroplastic
Swissprot	Q8GYC1	1e-121	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1S3V7L2	0.0	A0A1S3V7L2_VIGRR; protein indeterminate-domain 5, chloroplastic
STRING	XP_007143766.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-97	indeterminate(ID)-domain 5

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]