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

Lj2g3v1193050.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 444aa MW: 49976.8 Da PI: 5.0637

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj2g3v1193050.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	37.9	3.2e-12	231	282	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Lj2g3v1193050.1 231 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 282 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	1.6E-13	229	285	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.66E-12	229	286	No hit	No description
SuperFamily	SSF47459	3.01E-16	230	297	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.428	230	281	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.5E-9	231	282	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	236	287	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.00108	370	434	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: 444 aa Download sequence Send to blast
MEKDHNYSAP PMPPSFNPLH DYSSHQHHHN NLYPQMKFRI GETSGENNSN NSGMVMDYMP 60 QTQPPPQITS SPGGFYGGAG GFDKLSFADV VQFADFGPKL ALNHQGKDNC EESGIDPVYF 120 LKFPVLNDKM EDQNLMVNPN GEGEEAEKND ERFNNLVSVD DTSRAEEEGI IIREDEEETT 180 PDDNNSVQQH QHQNQFVGHE DQQVQKSNVQ ENKNKRKRPR SVKTTEEVES QRMTHIAVER 240 NRRKQMNEHL RVLRSLMPGS YVQRGDQASI IGGAIEFVRE LEQLLQCLES QKRRRLLGEA 300 QSRQVENSAA LAAAPATQQQ PPFFSPPLPV NDQMKQLVEM ESGGGLREET AESKSLLADV 360 EVKLLGFDAM IKILSRRRPG QLIKIIAALE DLQLIILHTN ITTIEQTVLY SFNVKVAGDS 420 RFTAEDIASS VQQIVSFIHA NISM

Sequence ? help Back to Top

Protein Sequence Length: 444 aa Download sequence Send to blast

MEKDHNYSAP PMPPSFNPLH DYSSHQHHHN NLYPQMKFRI GETSGENNSN NSGMVMDYMP  60
QTQPPPQITS SPGGFYGGAG GFDKLSFADV VQFADFGPKL ALNHQGKDNC EESGIDPVYF  120
LKFPVLNDKM EDQNLMVNPN GEGEEAEKND ERFNNLVSVD DTSRAEEEGI IIREDEEETT  180
PDDNNSVQQH QHQNQFVGHE DQQVQKSNVQ ENKNKRKRPR SVKTTEEVES QRMTHIAVER  240
NRRKQMNEHL RVLRSLMPGS YVQRGDQASI IGGAIEFVRE LEQLLQCLES QKRRRLLGEA  300
QSRQVENSAA LAAAPATQQQ PPFFSPPLPV NDQMKQLVEM ESGGGLREET AESKSLLADV  360
EVKLLGFDAM IKILSRRRPG QLIKIIAALE DLQLIILHTN ITTIEQTVLY SFNVKVAGDS  420
RFTAEDIASS VQQIVSFIHA NISM

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	231	242	RMTHIAVERNRR
2	291	295	KRRRL

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:24571519}.
Uniprot	TISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17088607}.

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	Lj2g3v1193050.1

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	1e-58	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_027361582.1	0.0	transcription factor FAMA isoform X1
Swissprot	Q56YJ8	1e-147	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A1S3VPN5	0.0	A0A1S3VPN5_VIGRR; transcription factor FAMA isoform X1
TrEMBL	V7C921	0.0	V7C921_PHAVU; Uncharacterized protein
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-124	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]