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

Pbr005087.1

Organism

Pyrus bretschneideri

Taxonomic ID

225117

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus

Family

bHLH

Protein Properties

Length: 785aa MW: 87635 Da PI: 5.1285

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr005087.1	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	45.8	1.1e-14	561	608	3	55
HHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 3 rahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++h Er+RR+++N++f L++++P+ K +K++iL A+eY+k+Lq Pbr005087.1 561 TNHALSERKRREKLNERFCILKSMVPSV-----SKEDKVSILDDAIEYLKDLQ 608 58999********************6.....49***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	6.0E-52	109	316	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	16.247	558	607	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.01E-17	561	619	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.3E-12	561	608	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.5E-17	561	617	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.92E-15	561	612	No hit	No description
SMART	SM00353	2.8E-14	564	613	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: 785 aa Download sequence Send to blast
MEEDGGEPPQ LPRPTSSEAP ISDPRLDPQS TCPESTLDPS EDDRTDSKPT LLNQTELFRA 60 LEVVERDSLA IADSFTSLFA VHLRLPPPGP LGGKDSKFKA LDMAVPENLR KQLALAVRSI 120 QWSYGIFWSI SARQPGVLEW GDGYYNGDIK TRKTVQAIEL NADQMGLQRS EQLRELYESL 180 SAGEASPQAR RPSASLSPED LADTEWYYLV CMSFVFNIGQ GLPGRTLANG KPTWLCNAHY 240 ADSKFFSRSL LAKNEVLKHL FSVWFSFDAW ICTCHPQSAS IQTVVCFPFL GGVIEIGVTE 300 LVLEDPSLIQ HVKTSFLEAP YPILASKRTN PSAGSTRNDN DLACAMLDDD VVDTKFIPVV 360 GCPEMDVTSP DDSSNCLGRP NQPVDDSFII EGMNRGASQV QSWQFMDDEI SNFVHHSMDS 420 SDCISQTLVY PEKVLFGPKT EKVNDHCPHE LKECNNTKMT SSDPQGNDLQ YQSVLSALLK 480 SSHQLVLGPH FQNSHQESSF ASWKRGWFVK CRTQRGGTPQ KLLKKILFEV PQMHVDCVLV 540 SPGDKSNANG VWRPEADEIG TNHALSERKR REKLNERFCI LKSMVPSVSK EDKVSILDDA 600 IEYLKDLQKR VEELESLREP TDSEAKIKRK LQDTVERTSD NRCNTKISNG KKPIVYKRKA 660 SDMDETEPEI SHIVSKNGSS DNITVNMTNK DVLIEMKFPW REGVLLEIMD TTSRLRLDTH 720 SVQSSTADGI LSLTIKSRGD EYCINGDNQA STSQNCQKLM YLAFVVISRI LSLYNCITLK 780 GSVD*

Sequence ? help Back to Top

Protein Sequence Length: 785 aa Download sequence Send to blast

MEEDGGEPPQ LPRPTSSEAP ISDPRLDPQS TCPESTLDPS EDDRTDSKPT LLNQTELFRA  60
LEVVERDSLA IADSFTSLFA VHLRLPPPGP LGGKDSKFKA LDMAVPENLR KQLALAVRSI  120
QWSYGIFWSI SARQPGVLEW GDGYYNGDIK TRKTVQAIEL NADQMGLQRS EQLRELYESL  180
SAGEASPQAR RPSASLSPED LADTEWYYLV CMSFVFNIGQ GLPGRTLANG KPTWLCNAHY  240
ADSKFFSRSL LAKNEVLKHL FSVWFSFDAW ICTCHPQSAS IQTVVCFPFL GGVIEIGVTE  300
LVLEDPSLIQ HVKTSFLEAP YPILASKRTN PSAGSTRNDN DLACAMLDDD VVDTKFIPVV  360
GCPEMDVTSP DDSSNCLGRP NQPVDDSFII EGMNRGASQV QSWQFMDDEI SNFVHHSMDS  420
SDCISQTLVY PEKVLFGPKT EKVNDHCPHE LKECNNTKMT SSDPQGNDLQ YQSVLSALLK  480
SSHQLVLGPH FQNSHQESSF ASWKRGWFVK CRTQRGGTPQ KLLKKILFEV PQMHVDCVLV  540
SPGDKSNANG VWRPEADEIG TNHALSERKR REKLNERFCI LKSMVPSVSK EDKVSILDDA  600
IEYLKDLQKR VEELESLREP TDSEAKIKRK LQDTVERTSD NRCNTKISNG KKPIVYKRKA  660
SDMDETEPEI SHIVSKNGSS DNITVNMTNK DVLIEMKFPW REGVLLEIMD TTSRLRLDTH  720
SVQSSTADGI LSLTIKSRGD EYCINGDNQA STSQNCQKLM YLAFVVISRI LSLYNCITLK  780
GSVD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rru_A	3e-11	107	312	46	227	Transcription factor MYC3
4ywc_A	3e-11	107	312	46	227	Transcription factor MYC3
4ywc_B	3e-11	107	312	46	227	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	566	571	ERKRRE
2	567	572	RKRREK

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pbr005087.1

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_009364930.1	0.0	PREDICTED: transcription factor EGL1-like
Refseq	XP_009364938.1	0.0	PREDICTED: transcription factor EGL1-like
Swissprot	Q9FN69	0.0	GL3_ARATH; Transcription factor GLABRA 3
TrEMBL	A0A498HZI2	0.0	A0A498HZI2_MALDO; Uncharacterized protein (Fragment)
STRING	XP_009364930.1	0.0	(Pyrus x bretschneideri)
STRING	XP_009364938.1	0.0	(Pyrus x bretschneideri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2444	34	63

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]