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

Gorai.007G023500.2

Common Name

B456_007G023500, LOC105801914

Organism

Gossypium raimondii

Taxonomic ID

29730

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: 591aa MW: 65959.5 Da PI: 5.8779

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.007G023500.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	46.3	7.6e-15	388	436	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +++h ErrRR++iN+++ L++l+P++ K +K++iL ++eY+++L+ Gorai.007G023500.2 388 CKSHVLSERRRREKINERLMILKSLVPTN-----SKADKVSILDDTIEYLQDLE 436 68999*********************8.....7**************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	1.6E-50	16	199	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	17.187	386	435	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.5E-12	388	436	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.24E-15	389	440	No hit	No description
SuperFamily	SSF47459	2.75E-17	389	450	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	6.3E-17	390	452	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.1E-16	392	441	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: 591 aa Download sequence Send to blast
MATTGVQNQE KVPMNLKQQF ALAVRNIQWS YGIFWSISAK QPGVLEWGDG YYNGDIKTRK 60 TVQSFEPKAD DQLGLQRSEQ LRELFESLSA GETSPHTKRP SVALSPEDLT ATEWYYLVCM 120 SFVFNIDQGL PGRTLSIGQP IWLCNAQYAD SKVFSRSLVA KSASIQTVVC FPYAGGVIEL 180 GVTDLVLKDL GLIHRVKSLL LDAPETITGN INDVACPGLG PNEIESELSP FLGCEQLERG 240 SPNEISDGFE PNQPAEDPFV NGGASQGEND NDNDFRDVEE CDRINRAAFD PISDDMHYRT 300 VVSVLLKSSH QFILGPHFGN SNKESGFISW KMNSSVKYRK AKVEIPQKLL KKMLFEVPRM 360 HDKGLLKSPQ GGDGVGDAVW RPEADELCKS HVLSERRRRE KINERLMILK SLVPTNSKAD 420 KVSILDDTIE YLQDLERRVE ELECCRELTE SETKTKQKHH RDRAERTSSN KVTNGNKSAS 480 SNKRKAYDIE ETKQDIDHVA SKDGSTENLT VSTNNKDLTI EFKCRWRDGI LFEIMDALSV 540 LDLDCHSVQS STIEGILSVT IKSKYKGSSV AKPGTIKQAL LQKVQSLTFV *

Sequence ? help Back to Top

Protein Sequence Length: 591 aa Download sequence Send to blast

MATTGVQNQE KVPMNLKQQF ALAVRNIQWS YGIFWSISAK QPGVLEWGDG YYNGDIKTRK  60
TVQSFEPKAD DQLGLQRSEQ LRELFESLSA GETSPHTKRP SVALSPEDLT ATEWYYLVCM  120
SFVFNIDQGL PGRTLSIGQP IWLCNAQYAD SKVFSRSLVA KSASIQTVVC FPYAGGVIEL  180
GVTDLVLKDL GLIHRVKSLL LDAPETITGN INDVACPGLG PNEIESELSP FLGCEQLERG  240
SPNEISDGFE PNQPAEDPFV NGGASQGEND NDNDFRDVEE CDRINRAAFD PISDDMHYRT  300
VVSVLLKSSH QFILGPHFGN SNKESGFISW KMNSSVKYRK AKVEIPQKLL KKMLFEVPRM  360
HDKGLLKSPQ GGDGVGDAVW RPEADELCKS HVLSERRRRE KINERLMILK SLVPTNSKAD  420
KVSILDDTIE YLQDLERRVE ELECCRELTE SETKTKQKHH RDRAERTSSN KVTNGNKSAS  480
SNKRKAYDIE ETKQDIDHVA SKDGSTENLT VSTNNKDLTI EFKCRWRDGI LFEIMDALSV  540
LDLDCHSVQS STIEGILSVT IKSKYKGSSV AKPGTIKQAL LQKVQSLTFV *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	1e-14	29	200	24	192	Transcription factor MYC3
4rqw_B	1e-14	29	200	24	192	Transcription factor MYC3
4rs9_A	1e-14	29	200	24	192	Transcription factor MYC3
4yz6_A	1e-14	29	200	24	192	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	394	399	ERRRRE
2	395	400	RRRREK

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: Ubiquitous with higher levels in buds and flowers. Specifically localized in developing root hair cells. 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:12956536, 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 promotes trichome formation. 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. Involved in seed mucilage production. Activates the transcription of GL2. {ECO:0000269\|PubMed:12917293, ECO:0000269\|PubMed:12956536, ECO:0000269\|PubMed:14627722, ECO:0000269\|PubMed:15361138, ECO:0000269\|PubMed:15590742}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By UV treatment. 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}.

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	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	XP_012488721.1	0.0	PREDICTED: transcription factor EGL1-like isoform X2
Swissprot	Q9CAD0	1e-174	EGL1_ARATH; Transcription factor EGL1
TrEMBL	A0A0D2S5L4	0.0	A0A0D2S5L4_GOSRA; Uncharacterized protein
STRING	Gorai.007G023500.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G63650.3	1e-165	bHLH family protein

Link Out ? help Back to Top
Phytozome	Gorai.007G023500.2
Entrez Gene	105801914

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] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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] 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] Cheng Y, et al. Brassinosteroids control root epidermal cell fate via direct regulation of a MYB-bHLH-WD40 complex by GSK3-like kinases. Elife, 2018. [PMID:24771765] 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] 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] Kwak SH,Song SK,Lee MM,Schiefelbein J TORNADO1 regulates root epidermal patterning through the WEREWOLF pathway in Arabidopsis thaliana. Plant Signal Behav, 2015. 10(12): p. e1103407 [PMID:26451798] 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] 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] Feng K, et al. An R2R3-MYB transcription factor, OjMYB1, functions in anthocyanin biosynthesis in Oenanthe javanica. Planta, 2018. 247(2): p. 301-315 [PMID:28965159] 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]