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

Tp57577_TGAC_v2_mRNA34443

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 301aa MW: 33614.5 Da PI: 5.4047

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA34443	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	44.3	3.1e-14	74	123	2	54
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r++h ++Er+RR+++N+ ++ L++l+P + k+ + a+i+e +++YI++L Tp57577_TGAC_v2_mRNA34443 74 RMSHIAVERNRRKQMNEQLSILKSLMPCF---YVKRGDQASIVEGVIDYINEL 123 89************************9...9***************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	5.18E-13	70	128	No hit	No description
SuperFamily	SSF47459	3.27E-17	71	140	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.567	72	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.9E-13	72	128	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.6E-11	74	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.4E-10	78	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010374	Biological Process	stomatal complex development
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 301 aa Download sequence Send to blast
MNDSREFGTE DLFSILENFN NFPPIINEQN SKTTSSTAPQ DFETELAETS HKCKRQKIAP 60 SSTEEPNNND GQPRMSHIAV ERNRRKQMNE QLSILKSLMP CFYVKRGDQA SIVEGVIDYI 120 NELHQLVQCL ESKKQRKVYN EVLSPRLLIS SPRPSPLISP RTILPISPRT PHSQQWLQQC 180 GGYLSSEPSP TSSASSINDN INELVANSKS SVADVEVKFC GSHLLLKTVS SXXXXXXXXX 240 XXXXXALRIM SVLEDLALEI VHASVNTADE TMLNSFTIKI GIECQLSAEE LAQQIQQTFC 300 *

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	73	84	RMSHIAVERNRR

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as an integration node for stomata and brassinosteroid (BR) signaling pathways to control stomatal initiation and development (PubMed:22466366, PubMed:28507175). Activates transcription when in the presence of SCRM/ICE1 (PubMed:28507175). Functions as a dimer with SCRM or SCRM2 during stomatal initiation (PubMed:18641265). Required for the initiation, the spacing and the formation of stomata, by promoting the first asymmetric cell divisions (PubMed:25843888, PubMed:25680231, PubMed:19008449). Together with FMA and MUTE, modulates the stomata formation. Involved in the regulation of growth reduction under osmotic stress (e.g. mannitol), associated with a quick decrease of meristemoid mother cells (MMCs) number lower stomatal index and density (PubMed:25381317). {ECO:0000269\|PubMed:17183265, ECO:0000269\|PubMed:17183267, ECO:0000269\|PubMed:18641265, ECO:0000269\|PubMed:19008449, ECO:0000269\|PubMed:22466366, ECO:0000269\|PubMed:25381317, ECO:0000269\|PubMed:25680231, ECO:0000269\|PubMed:25843888, ECO:0000269\|PubMed:28507175}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA34443

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by brassinazole (BRZ), thus leading to a reduced number of stomata in hypocotyls (PubMed:25680231). Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index (PubMed:22442411). Repressed by YDA (at protein level) (PubMed:19008449). Post-transcriptional decrease of protein level in response to osmotic stress (e.g. mannitol), through the action of a mitogen-activated protein kinase (MAPK) cascade; this repression is reversed by the MAPK kinase inhibitor PD98059 (PubMed:25381317). {ECO:0000269\|PubMed:19008449, ECO:0000269\|PubMed:22442411, ECO:0000269\|PubMed:25381317, ECO:0000269\|PubMed:25680231}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013466371.1	1e-150	transcription factor SPEECHLESS
Swissprot	Q700C7	2e-76	SPCH_ARATH; Transcription factor SPEECHLESS
TrEMBL	A0A2Z6MBN5	1e-179	A0A2Z6MBN5_TRISU; Uncharacterized protein
STRING	XP_004498438.1	1e-132	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3686	34	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G06120.1	8e-47	bHLH family protein

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA34443

Publications ? help Back to Top
Casson S,Gray JE Influence of environmental factors on stomatal development. New Phytol., 2008. 178(1): p. 9-23 [PMID:18266617] 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] Yang K,Jiang M,Le J A new loss-of-function allele 28y reveals a role of ARGONAUTE1 in limiting asymmetric division of stomatal lineage ground cell. J Integr Plant Biol, 2014. 56(6): p. 539-49 [PMID:24386951] Balcerowicz M,Ranjan A,Rupprecht L,Fiene G,Hoecker U Auxin represses stomatal development in dark-grown seedlings via Aux/IAA proteins. Development, 2014. 141(16): p. 3165-76 [PMID:25063454] Lau OS, et al. Direct roles of SPEECHLESS in the specification of stomatal self-renewing cells. Science, 2014. 345(6204): p. 1605-9 [PMID:25190717] Davies KA,Bergmann DC Functional specialization of stomatal bHLHs through modification of DNA-binding and phosphoregulation potential. Proc. Natl. Acad. Sci. U.S.A., 2014. 111(43): p. 15585-90 [PMID:25304637] Zhang Y,Wang P,Shao W,Zhu JK,Dong J The BASL polarity protein controls a MAPK signaling feedback loop in asymmetric cell division. Dev. Cell, 2015. 33(2): p. 136-49 [PMID:25843888] de Marcos A, et al. Transcriptional profiles of Arabidopsis stomataless mutants reveal developmental and physiological features of life in the absence of stomata. Front Plant Sci, 2015. 6: p. 456 [PMID:26157447] Horst RJ, et al. Molecular Framework of a Regulatory Circuit Initiating Two-Dimensional Spatial Patterning of Stomatal Lineage. PLoS Genet., 2015. 11(7): p. e1005374 [PMID:26203655] Klermund C, et al. LLM-Domain B-GATA Transcription Factors Promote Stomatal Development Downstream of Light Signaling Pathways in Arabidopsis thaliana Hypocotyls. Plant Cell, 2016. 28(3): p. 646-60 [PMID:26917680] Gu F, et al. Arabidopsis CSLD5 Functions in Cell Plate Formation in a Cell Cycle-Dependent Manner. Plant Cell, 2016. 28(7): p. 1722-37 [PMID:27354558] Raissig MT,Abrash E,Bettadapur A,Vogel JP,Bergmann DC Grasses use an alternatively wired bHLH transcription factor network to establish stomatal identity. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(29): p. 8326-31 [PMID:27382177] Castorina G,Fox S,Tonelli C,Galbiati M,Conti L A novel role for STOMATAL CARPENTER 1 in stomata patterning. BMC Plant Biol., 2016. 16(1): p. 172 [PMID:27484174] Fu ZW,Wang YL,Lu YT,Yuan TT Nitric oxide is involved in stomatal development by modulating the expression of stomatal regulator genes in Arabidopsis. Plant Sci., 2016. 252: p. 282-289 [PMID:27717464] Zhang Y,Guo X,Dong J Phosphorylation of the Polarity Protein BASL Differentiates Asymmetric Cell Fate through MAPKs and SPCH. Curr. Biol., 2016. 26(21): p. 2957-2965 [PMID:27746029] Sakai Y, et al. The chemical compound bubblin induces stomatal mispatterning in Arabidopsis by disrupting the intrinsic polarity of stomatal lineage cells. Development, 2017. 144(3): p. 499-506 [PMID:28087627] de Marcos A, et al. A Mutation in the bHLH Domain of the SPCH Transcription Factor Uncovers a BR-Dependent Mechanism for Stomatal Development. Plant Physiol., 2017. 174(2): p. 823-842 [PMID:28507175] Dow GJ,Berry JA,Bergmann DC Disruption of stomatal lineage signaling or transcriptional regulators has differential effects on mesophyll development, but maintains coordination of gas exchange. New Phytol., 2017. 216(1): p. 69-75 [PMID:28833173] 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] Zoulias N,Harrison EL,Casson SA,Gray JE Molecular control of stomatal development. Biochem. J., 2018. 475(2): p. 441-454 [PMID:29386377] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884] Houbaert A, et al. POLAR-guided signalling complex assembly and localization drive asymmetric cell division. Nature, 2018. 563(7732): p. 574-578 [PMID:30429609]