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

Gh_D11G0213

Common Name

bHLH110D, ghdel61

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

bHLH

Protein Properties

Length: 624aa MW: 69815.6 Da PI: 5.453

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D11G0213	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	46.2	8.2e-15	422	470	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +++h ErrRR++iN+++ L++l+P++ K +K++iL ++eY+++L+ Gh_D11G0213 422 CKSHVLSERRRREKINERLMILKSLVPTN-----SKADKVSILDDTIEYLQDLE 470 68999*********************8.....7**************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	1.5E-51	16	199	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	17.187	420	469	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.7E-12	422	470	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.01E-17	423	484	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.49E-15	423	474	No hit	No description
Gene3D	G3DSA:4.10.280.10	6.8E-17	424	486	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.1E-16	426	475	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: 624 aa Download sequence Send to blast
MATTGVQNQE KVPMNLKQQL ALAVRNIQWS YGIFWSISAK QPGVLEWGDG YYNGDIKTRK 60 TVQSFEPKAD DQLGLQRSEQ LRELFESLSA GETSPHTKRP SVALSPEDLT ATEWYYLVCM 120 SFVFNIDQGL PGRTLSIGQP IWLCNAQYAD SKVFSRSLVA KSASIQTVVC FPYAGGVIEL 180 GVTDLVSKDP GLIHRVKSLL LDAPETITGN INDVACPGLG PNEIESELSP FLGCEQLERG 240 SPNEISDGFE PNQPAEDPFV NGGASQVQSW QFMDDHHSLN TSDCISQTFS DHEDVVPLCQ 300 GENDNDNDFR DVEECDRINR AAFDPISDDM HYRTVVSVLL KSSHQFILGP HFGNSNKESG 360 FISWKMNSSV KYRKAKVEIP QKLLKKMLFE VPRMHDKGLL KSPQGGDGVG DAVWRPEADE 420 LCKSHVLSER RRREKINERL MILKSLVPTN SKADKVSILD DTIEYLQDLE RRVEELECCR 480 ELTESETKTK QKHHRDRAER TSSNKVTNGN KSASSNKRKA YDIEETKQDI DHVASKDGST 540 ENLTVSTNNK DLTIEFKCRW RDGILFEIMD ALSVLDLDCH SVQSSTIEGI LSVTIKSKYK 600 GSSVAKPGTI KQALLQKVQS LTFV

Sequence ? help Back to Top

Protein Sequence Length: 624 aa Download sequence Send to blast

MATTGVQNQE KVPMNLKQQL ALAVRNIQWS YGIFWSISAK QPGVLEWGDG YYNGDIKTRK  60
TVQSFEPKAD DQLGLQRSEQ LRELFESLSA GETSPHTKRP SVALSPEDLT ATEWYYLVCM  120
SFVFNIDQGL PGRTLSIGQP IWLCNAQYAD SKVFSRSLVA KSASIQTVVC FPYAGGVIEL  180
GVTDLVSKDP GLIHRVKSLL LDAPETITGN INDVACPGLG PNEIESELSP FLGCEQLERG  240
SPNEISDGFE PNQPAEDPFV NGGASQVQSW QFMDDHHSLN TSDCISQTFS DHEDVVPLCQ  300
GENDNDNDFR DVEECDRINR AAFDPISDDM HYRTVVSVLL KSSHQFILGP HFGNSNKESG  360
FISWKMNSSV KYRKAKVEIP QKLLKKMLFE VPRMHDKGLL KSPQGGDGVG DAVWRPEADE  420
LCKSHVLSER RRREKINERL MILKSLVPTN SKADKVSILD DTIEYLQDLE RRVEELECCR  480
ELTESETKTK QKHHRDRAER TSSNKVTNGN KSASSNKRKA YDIEETKQDI DHVASKDGST  540
ENLTVSTNNK DLTIEFKCRW RDGILFEIMD ALSVLDLDCH SVQSSTIEGI LSVTIKSKYK  600
GSSVAKPGTI KQALLQKVQS LTFV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	5e-16	8	200	5	192	Transcription factor MYC3
4rqw_B	5e-16	8	200	5	192	Transcription factor MYC3
4rs9_A	5e-16	8	200	5	192	Transcription factor MYC3
4yz6_A	5e-16	8	200	5	192	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	428	433	ERRRRE
2	429	434	RRRREK

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	13346179	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Localized in trichome developing region of leaves, prior to trichome initiation. Levels increase in initiating and young trichome cells, but dropped in the pavement cells between trichomes. Disappears in mature trichomes. {ECO:0000269\|PubMed:12917293}.
Uniprot	TISSUE SPECIFICITY: Mostly expressed in roots and flowers. Also present in stems and leaves, and, to a lower extent, in hypocotyls. Expressed in epidermal root hair cells (trichoblasts) and moves to root hairless cells (atrichoblasts) by a cell-to-cell movement through plasmodesmata (at protein level). {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:14627722, ECO:0000269\|PubMed:15590742}.

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF336279	0.0	AF336279.1 Gossypium hirsutum GHDEL61 (ghdel61) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001313863.1	0.0	transcription factor EGL1-like
Swissprot	Q9FN69	0.0	GL3_ARATH; Transcription factor GLABRA 3
TrEMBL	Q9ATD8	0.0	Q9ATD8_GOSHI; Basic helix-loop-helix protein 110D
STRING	Gorai.007G023500.1	0.0	(Gossypium raimondii)

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	1e-180	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] Yan Q, et al. The Basic/Helix-Loop-Helix Protein Family in Gossypium: Reference Genes and Their Evolution during Tetraploidization. PLoS ONE, 2015. 10(5): p. e0126558 [PMID:25992947] 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]