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

Tp_un0010_011

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella

Family

bHLH

Protein Properties

Length: 625aa MW: 69124 Da PI: 6.054

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp_un0010_011	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	42.4	1.2e-13	438	485	3	55
HHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 3 rahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 ++h E++RR+++N++f Lr+++P+ + K +K++iL ++eY+++L+ Tp_un0010_011 438 ANHAVLEKKRREKLNERFMILRSIIPSiN------KIDKVSILDDTIEYLQELE 485 5899*********************77......**************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	2.3E-52	14	206	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	16.412	435	484	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.57E-17	437	501	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.9E-11	438	485	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.7E-17	439	497	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.09E-14	439	489	No hit	No description
SMART	SM00353	5.9E-15	441	490	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009957	Biological Process	epidermal cell fate specification
GO:0010091	Biological Process	trichome branching
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 625 aa Download sequence Send to blast
MVTGQNRTSV PENLKKKLAV SIRSIQWSYA IFWSLSSSHS GVLEWGDGYY NGDIKTRKTI 60 QASEIKADQL GLRRSEQLRE LYESLSVAES STSGTAAGSQ VTRRASAAAL SPEDLADTEW 120 YYLVCMSFVF KIGEGMPGRA FTNAEPIWLC NAHTADSKVF SRSLLAKSAS VNTVICFPFL 180 GGVIEIGTTE HVAEDMNVIQ CMKKSFLEAP DPYATILQPR SDYHIDNVFD PQQILGDEIY 240 APMFGTEPFL ATSPSRTTNG FDLEHEQVAE DHDSFMAEGV SSQIQSWQLM DEDLSNCVHQ 300 SFNSSDCVSQ TFVEAAGGRV SGSARKGRAQ RLGHTQEQQK NVKILSLDPG NDDVHYQGVI 360 STIFKTNHQL ILGPQFRNCD KQSSFTRWKK PSSSSSSGTV AVVPSSQGML KKIIFEVPRV 420 IQKEKLLLDS VGVGDETANH AVLEKKRREK LNERFMILRS IIPSINKIDK VSILDDTIEY 480 LQELERRVQE LESTGTETHG TMTMKRKKPY DAGERTSANC TNNETGNGKR VQVGEAEPAE 540 TGLTDNLRIG SVGNEVVIEL RCAWREGVLL EIMDVISDLN LDSHSVQSST GDGLLCLTIS 600 CKHKGSKIAT PRMIKEALQK VAWIC

Sequence ? help Back to Top

Protein Sequence Length: 625 aa Download sequence Send to blast

MVTGQNRTSV PENLKKKLAV SIRSIQWSYA IFWSLSSSHS GVLEWGDGYY NGDIKTRKTI  60
QASEIKADQL GLRRSEQLRE LYESLSVAES STSGTAAGSQ VTRRASAAAL SPEDLADTEW  120
YYLVCMSFVF KIGEGMPGRA FTNAEPIWLC NAHTADSKVF SRSLLAKSAS VNTVICFPFL  180
GGVIEIGTTE HVAEDMNVIQ CMKKSFLEAP DPYATILQPR SDYHIDNVFD PQQILGDEIY  240
APMFGTEPFL ATSPSRTTNG FDLEHEQVAE DHDSFMAEGV SSQIQSWQLM DEDLSNCVHQ  300
SFNSSDCVSQ TFVEAAGGRV SGSARKGRAQ RLGHTQEQQK NVKILSLDPG NDDVHYQGVI  360
STIFKTNHQL ILGPQFRNCD KQSSFTRWKK PSSSSSSGTV AVVPSSQGML KKIIFEVPRV  420
IQKEKLLLDS VGVGDETANH AVLEKKRREK LNERFMILRS IIPSINKIDK VSILDDTIEY  480
LQELERRVQE LESTGTETHG TMTMKRKKPY DAGERTSANC TNNETGNGKR VQVGEAEPAE  540
TGLTDNLRIG SVGNEVVIEL RCAWREGVLL EIMDVISDLN LDSHSVQSST GDGLLCLTIS  600
CKHKGSKIAT PRMIKEALQK VAWIC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	7e-16	12	206	7	192	Transcription factor MYC3
4rqw_B	7e-16	12	206	7	192	Transcription factor MYC3
4rs9_A	7e-16	12	206	7	192	Transcription factor MYC3
4yz6_A	7e-16	12	206	7	192	Transcription factor MYC3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	444	449	KKRREK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator, when associated with MYB75/PAP1, MYB90/PAP2 or TT2. Involved in epidermal cell fate specification. Regulates negatively stomata formation, but, in association with TTG1 and MYB0/GL1, promotes trichome formation, branching and endoreplication. Regulates also trichome cell wall maturation. Together with MYB66/WER, promotes the formation of non-hair cells in root epidermis cells in the N position. Whereas together with CPC, promotes the formation of hair cells in root epidermis cells in the H position by inhibiting non-hair cell formation. Seems also to play a role in the activation of anthocyanin biosynthesis, probably together with MYB75/PAP1. Activates the transcription of GL2. {ECO:0000269\|PubMed:11063707, ECO:0000269\|PubMed:12917293, ECO:0000269\|PubMed:12956536, ECO:0000269\|PubMed:14561633, ECO:0000269\|PubMed:14627722, ECO:0000269\|PubMed:15361138, ECO:0000269\|PubMed:15590742}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By nitrogen deficiency and UV light. Negatively regulated by MYB66/WER, GL3 and BHLH2 in the developing non-hair cells, and positively regulated by CPC and TRY in the developing hair cells. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:15590742, ECO:0000269\|PubMed:17053893}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009140081.1	0.0	PREDICTED: transcription factor GLABRA 3 isoform X1
Refseq	XP_009140082.1	0.0	PREDICTED: transcription factor GLABRA 3 isoform X2
Swissprot	Q9FN69	0.0	GL3_ARATH; Transcription factor GLABRA 3
TrEMBL	A0A397ZK09	0.0	A0A397ZK09_BRACM; Uncharacterized protein
STRING	Bra025508.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2592	28	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G41315.1	0.0	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] Liu Z,Shi MZ,Xie DY Regulation of anthocyanin biosynthesis in Arabidopsis thaliana red pap1-D cells metabolically programmed by auxins. Planta, 2014. 239(4): p. 765-81 [PMID:24370633] Nemie-Feyissa D,Olafsdottir SM,Heidari B,Lillo C Nitrogen depletion and small R3-MYB transcription factors affecting anthocyanin accumulation in Arabidopsis leaves. Phytochemistry, 2014. 98: p. 34-40 [PMID:24388610] Nayidu NK, et al. Comparison of five major trichome regulatory genes in Brassica villosa with orthologues within the Brassicaceae. PLoS ONE, 2014. 9(4): p. e95877 [PMID:24755905] Wada T,Kunihiro A,Tominaga-Wada R Arabidopsis CAPRICE (MYB) and GLABRA3 (bHLH) control tomato (Solanum lycopersicum) anthocyanin biosynthesis. PLoS ONE, 2014. 9(9): p. e109093 [PMID:25268379] Ranocha P,Francoz E,Burlat V,Dunand C Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion. Plant Signal Behav, 2014. 9(11): p. e977734 [PMID:25531128] Sun L, et al. GLABROUS INFLORESCENCE STEMS3 (GIS3) regulates trichome initiation and development in Arabidopsis. New Phytol., 2015. 206(1): p. 220-30 [PMID:25640859] Nemie-Feyissa D,Heidari B,Blaise M,Lillo C Analysis of interactions between heterologously produced bHLH and MYB proteins that regulate anthocyanin biosynthesis: quantitative interaction kinetics by Microscale Thermophoresis. Phytochemistry, 2015. 111: p. 21-6 [PMID:25659750] Yu D, et al. RPN1a, a subunit of the 26S proteasome, controls trichome development in Arabidopsis. Plant Physiol. Biochem., 2015. 88: p. 82-8 [PMID:25676129] Huang M,Hu Y,Liu X,Li Y,Hou X Arabidopsis LEAFY COTYLEDON1 controls cell fate determination during post-embryonic development. Front Plant Sci, 2015. 6: p. 955 [PMID:26579186] Dai X, et al. A single amino acid substitution in the R3 domain of GLABRA1 leads to inhibition of trichome formation in Arabidopsis without affecting its interaction with GLABRA3. Plant Cell Environ., 2016. 39(4): p. 897-907 [PMID:26667588] Pan Y,Bo K,Cheng Z,Weng Y The loss-of-function GLABROUS 3 mutation in cucumber is due to LTR-retrotransposon insertion in a class IV HD-ZIP transcription factor gene CsGL3 that is epistatic over CsGL1. BMC Plant Biol., 2015. 15: p. 302 [PMID:26714637] Alahakoon UI, et al. Hairy Canola (Brasssica napus) re-visited: Down-regulating TTG1 in an AtGL3-enhanced hairy leaf background improves growth, leaf trichome coverage, and metabolite gene expression diversity. BMC Plant Biol., 2016. 16: p. 12 [PMID:26739276] Zheng K, et al. Ectopic expression of R3 MYB transcription factor gene OsTCL1 in Arabidopsis, but not rice, affects trichome and root hair formation. Sci Rep, 2016. 6: p. 19254 [PMID:26758286] Shangguan XX,Yang CQ,Zhang XF,Wang LJ Functional characterization of a basic helix-loop-helix (bHLH) transcription factor GhDEL65 from cotton (Gossypium hirsutum). Physiol Plant, 2016. 158(2): p. 200-12 [PMID:27080593] Petridis A,Döll S,Nichelmann L,Bilger W,Mock HP Arabidopsis thaliana G2-LIKE FLAVONOID REGULATOR and BRASSINOSTEROID ENHANCED EXPRESSION1 are low-temperature regulators of flavonoid accumulation. New Phytol., 2016. 211(3): p. 912-25 [PMID:27125220] Gao C, et al. Genome-wide identification of GLABRA3 downstream genes for anthocyanin biosynthesis and trichome formation in Arabidopsis. Biochem. Biophys. Res. Commun., 2017. 485(2): p. 360-365 [PMID:28216162] Friede A, et al. The Second Intron Is Essential for the Transcriptional Control of the Arabidopsis thaliana GLABRA3 Gene in Leaves. Front Plant Sci, 2017. 8: p. 1382 [PMID:28848584] Gao C, et al. Brassica napusGLABRA3-1 promotes anthocyanin biosynthesis and trichome formation in true leaves when expressed in Arabidopsis thaliana. Plant Biol (Stuttg), 2018. 20(1): p. 3-9 [PMID:28940939] Wen J, et al. The C-terminal domains of Arabidopsis GL3/EGL3/TT8 interact with JAZ proteins and mediate dimeric interactions. Plant Signal Behav, 2018. 13(1): p. e1422460 [PMID:29293407] Kim SY,Hyoung S,So WM,Shin JS The novel transcription factor TRP interacts with ZFP5, a trichome initiation-related transcription factor, and negatively regulates trichome initiation through gibberellic acid signaling. Plant Mol. Biol., 2018. 96(3): p. 315-326 [PMID:29335898]