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

Niben101Scf02511g04004.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

bHLH

Protein Properties

Length: 495aa MW: 54095.3 Da PI: 4.9058

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf02511g04004.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	13.4	0.00014	118	138	2	22
HHHHHHHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafee 22 r +h +Er+RR+++N+ +++ Niben101Scf02511g04004.1 118 RISHITVERNRRKQMNEHLSK 138 889**************9986 PP
2	HLH	41.1	3.3e-13	256	306	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r +h +Er+RR+++N+ ++ Lr+l+P ++k+ + a+i +v+YI++Lq Niben101Scf02511g04004.1 256 RISHITVERNRRKQMNEHLSVLRSLMPCF---YAKRGDQASIIGGVVDYINELQ 306 889***********************9...9******************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.996	254	305	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.23E-12	254	310	No hit	No description
SuperFamily	SSF47459	5.5E-17	255	321	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.1E-10	256	306	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.6E-13	256	317	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.6E-10	260	311	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 495 aa Download sequence Send to blast
MEGESLSDHF FEDSEFDIFS ILEALEGGGA SEFNMSNPTT TTTATTTTTT DEINGLVSKE 60 EEKKRKLVSQ KSTGSSATLQ EYSETEADGG VTPNSNKRQK LAAVIGGVED VNNQMETRIS 120 HITVERNRRK QMNEHLSKME GESLSDHFFE DSEFDIFSIL EALEGGGASE FNMSNPTTTT 180 TATTTTTTDE INGLVSKEEE KKRKLVSQKS TGSSATLQEY SETEADGGVT PNSNKRQKLA 240 AVIGGVEDVN NQMETRISHI TVERNRRKQM NEHLSVLRSL MPCFYAKRGD QASIIGGVVD 300 YINELQQVLQ SLEAKKQRKV YSEVLSPRLA IPSPRVLPSP LSPRKPPLSP KINLPISPRT 360 PQPTSPYKPN NNNNNNNRLQ QPTISATSLE PSPTSSSTNS SIDSVNELAA NSKSAIADVE 420 VKFSGANVIL KTVSPRIPGQ AVKIIAALEE LELEILHVSI STIDGTMLNS FTIKIGIECQ 480 LSAEELAHQI QQTFC

Sequence ? help Back to Top

Protein Sequence Length: 495 aa Download sequence Send to blast

MEGESLSDHF FEDSEFDIFS ILEALEGGGA SEFNMSNPTT TTTATTTTTT DEINGLVSKE  60
EEKKRKLVSQ KSTGSSATLQ EYSETEADGG VTPNSNKRQK LAAVIGGVED VNNQMETRIS  120
HITVERNRRK QMNEHLSKME GESLSDHFFE DSEFDIFSIL EALEGGGASE FNMSNPTTTT  180
TATTTTTTDE INGLVSKEEE KKRKLVSQKS TGSSATLQEY SETEADGGVT PNSNKRQKLA  240
AVIGGVEDVN NQMETRISHI TVERNRRKQM NEHLSVLRSL MPCFYAKRGD QASIIGGVVD  300
YINELQQVLQ SLEAKKQRKV YSEVLSPRLA IPSPRVLPSP LSPRKPPLSP KINLPISPRT  360
PQPTSPYKPN NNNNNNNRLQ QPTISATSLE PSPTSSSTNS SIDSVNELAA NSKSAIADVE  420
VKFSGANVIL KTVSPRIPGQ AVKIIAALEE LELEILHVSI STIDGTMLNS FTIKIGIECQ  480
LSAEELAHQI QQTFC

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}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009801585.1	0.0	PREDICTED: transcription factor SPEECHLESS
Refseq	XP_016439723.1	0.0	PREDICTED: transcription factor SPEECHLESS-like
Swissprot	Q700C7	2e-99	SPCH_ARATH; Transcription factor SPEECHLESS
TrEMBL	A0A1S3XII0	0.0	A0A1S3XII0_TOBAC; transcription factor SPEECHLESS-like
TrEMBL	A0A1U7YRX4	0.0	A0A1U7YRX4_NICSY; transcription factor SPEECHLESS
STRING	XP_009801585.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA7357	22	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G53210.1	5e-81	bHLH family protein

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]