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

Vradi11g12460.1

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

bHLH

Protein Properties

Length: 430aa MW: 48813.9 Da PI: 4.8742

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi11g12460.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38	3.1e-12	225	276	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Vradi11g12460.1 225 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 276 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.5E-13	223	279	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.43E-12	223	280	No hit	No description
PROSITE profile	PS50888	15.428	224	275	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.22E-16	224	290	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.4E-9	225	276	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	230	281	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.00382	355	419	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010377	Biological Process	guard cell fate commitment
GO:0045597	Biological Process	positive regulation of cell differentiation
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051782	Biological Process	negative regulation of cell division
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 430 aa Download sequence Send to blast
MEKDHNYSAP LSMPPSFNTL DYSLDHDQNH LYPPNHHQQQ LMKFQASADQ NNNGSMVDYM 60 PQTPPTPPPP HGFYAASNTA TISYDKLSFA DVMQFADFGP KLALNQTKSC EESGLDPVYF 120 LKFPVLNDKM EEEQTLMVNE DPDGEAENHD ERFNLVDVEE KSRVGEEGMM MREDEETRLS 180 DDNNNSVQIR FLGQEETQKN AGVQENKNKR KRPRTVKTSE EVESQRMTHI AVERNRRKQM 240 NEHLRVLRSL MPGSYVQRGD QASIIGGAIE FVRELEQLLQ CLESQKRRRV LGEAQARQVG 300 EPSIAQQQPP FFPPLAIPNE QMKLVELESG LREETAESKS CLADVEVKLL GFDAMIKILS 360 RRRPGQLIKT IAALEDLQLI ILHTNITTIE QTVLYSFNVK VASDSRFTAE DIASSVQQIF 420 NFIHANTSM*

Sequence ? help Back to Top

Protein Sequence Length: 430 aa Download sequence Send to blast

MEKDHNYSAP LSMPPSFNTL DYSLDHDQNH LYPPNHHQQQ LMKFQASADQ NNNGSMVDYM  60
PQTPPTPPPP HGFYAASNTA TISYDKLSFA DVMQFADFGP KLALNQTKSC EESGLDPVYF  120
LKFPVLNDKM EEEQTLMVNE DPDGEAENHD ERFNLVDVEE KSRVGEEGMM MREDEETRLS  180
DDNNNSVQIR FLGQEETQKN AGVQENKNKR KRPRTVKTSE EVESQRMTHI AVERNRRKQM  240
NEHLRVLRSL MPGSYVQRGD QASIIGGAIE FVRELEQLLQ CLESQKRRRV LGEAQARQVG  300
EPSIAQQQPP FFPPLAIPNE QMKLVELESG LREETAESKS CLADVEVKLL GFDAMIKILS  360
RRRPGQLIKT IAALEDLQLI ILHTNITTIE QTVLYSFNVK VASDSRFTAE DIASSVQQIF  420
NFIHANTSM*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	225	236	RMTHIAVERNRR
2	285	289	KRRRV

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:17183265, ECO:0000269\|PubMed:17183267, ECO:0000269\|PubMed:24571519, ECO:0000269\|PubMed:24654956}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi11g12460.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269\|PubMed:22442411}.

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	AP015043	0.0	AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014520029.1	0.0	transcription factor FAMA isoform X1
Swissprot	Q56YJ8	1e-148	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A1S3VPN5	0.0	A0A1S3VPN5_VIGRR; transcription factor FAMA isoform X1
STRING	XP_007153422.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10489	33	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-136	bHLH family protein

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Matos JL, et al. Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module. Elife, 2015. [PMID:25303364] Chen L, et al. NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis. Development, 2016. 143(9): p. 1600-11 [PMID:26989174] Lee JH,Jung JH,Park CM Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis. Plant Cell, 2017. 29(11): p. 2817-2830 [PMID:29070509] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884] Li X,Yang R,Chen H The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA. PLoS ONE, 2018. 13(3): p. e0193458 [PMID:29513733]