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

Vradi07g08960.1

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: 403aa MW: 44791.4 Da PI: 9.0866

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi07g08960.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.5	2.3e-05	107	129	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C +C+k + +s++k Hi+t+ Vradi07g08960.1 107 WVCDKCSKGYAVQSDYKAHIKTC 129 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.8E-4	98	128	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding

Sequence ? help Back to Top
Protein Sequence Length: 403 aa Download sequence Send to blast
MLDNSASSGA PSSSDAAFAL SENGVANKRK RRPAGTPGFQ RDQNLQMHRR RHKVPWKLLK 60 RETQGQKKRV FVCPEPSCLH HDPCHALGDL VGIKKHFRRK HSNHKQWVCD KCSKGYAVQS 120 DYKAHIKTCG TRGHSCDCGR VFSRVESFIE HQDACTVRQH RPELQALQPA CSSRTASSAS 180 PSSEANFSIA PPLQGLPLPK PASADQPATV LLTSEIHNNK STTSRNLELQ LLPSSINSQE 240 KRNPKENYGL KLSIGSCSND KGNEERVCSE THRSQPERNN NVSEYSTLEV ARLKEFAAEE 300 LKLAMAEKAY AEEARKEAKR QIEIAEIEFE NAKRIRKQAQ SELAKAEELR KHAMKKISST 360 VLEITCQSCK QHFQSSTLGV PSEETSIVMS YMSSATTEGE AE*

Sequence ? help Back to Top

Protein Sequence Length: 403 aa Download sequence Send to blast

MLDNSASSGA PSSSDAAFAL SENGVANKRK RRPAGTPGFQ RDQNLQMHRR RHKVPWKLLK  60
RETQGQKKRV FVCPEPSCLH HDPCHALGDL VGIKKHFRRK HSNHKQWVCD KCSKGYAVQS  120
DYKAHIKTCG TRGHSCDCGR VFSRVESFIE HQDACTVRQH RPELQALQPA CSSRTASSAS  180
PSSEANFSIA PPLQGLPLPK PASADQPATV LLTSEIHNNK STTSRNLELQ LLPSSINSQE  240
KRNPKENYGL KLSIGSCSND KGNEERVCSE THRSQPERNN NVSEYSTLEV ARLKEFAAEE  300
LKLAMAEKAY AEEARKEAKR QIEIAEIEFE NAKRIRKQAQ SELAKAEELR KHAMKKISST  360
VLEITCQSCK QHFQSSTLGV PSEETSIVMS YMSSATTEGE AE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-17	105	155	5	55	Zinc finger protein JACKDAW
5b3h_F	1e-17	105	155	5	55	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269\|PubMed:16813575, ECO:0000269\|PubMed:18259878, ECO:0000269\|PubMed:24039602, ECO:0000269\|PubMed:9210330}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi07g08960.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.

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	AP015034	0.0	AP015034.1 Vigna angularis var. angularis DNA, chromosome 1, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014505614.1	0.0	protein SHOOT GRAVITROPISM 5
Swissprot	F4IPE3	1e-131	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	A0A1S3UI42	0.0	A0A1S3UI42_VIGRR; protein SHOOT GRAVITROPISM 5
STRING	XP_007158819.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1769	32	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68130.1	1e-118	indeterminate(ID)-domain 14

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Kim JY,Ryu JY,Baek K,Park CM High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis. New Phytol., 2016. 209(1): p. 265-79 [PMID:26256266] Ryu JY,Kim JY,Park CM Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis. Plant Signal Behav, 2015. 10(11): p. e1093715 [PMID:26452406] Qu Y, et al. Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis. J. Exp. Bot., 2017. 68(17): p. 4851-4867 [PMID:28992128] Shi H, et al. Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17. J. Pineal Res., 2018. 65(2): p. e12494 [PMID:29607541]