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

Cagra.3356s0080.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 612aa MW: 66705.5 Da PI: 4.5281

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.3356s0080.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	39.4	1.1e-12	438	483	4	54
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 +h e+Er+RR+++N++f Lr ++P+ K++Ka+ L A+ YI++L Cagra.3356s0080.1.p 438 NHVEAERQRREKLNQRFYSLRAVVPNV-----SKMDKASLLGDAISYINEL 483 799*********************6.....5*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	3.2E-55	63	259	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	17.282	434	483	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.31E-18	437	504	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.70E-15	437	488	No hit	No description
Gene3D	G3DSA:4.10.280.10	6.6E-19	438	504	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.0E-10	438	483	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	9.0E-17	440	489	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006952	Biological Process	defense response
GO:0009718	Biological Process	anthocyanin-containing compound biosynthetic process
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0043425	Molecular Function	bHLH transcription factor binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 612 aa Download sequence Send to blast
MSPTSVQITD YHLNQSTNGT TNLWSNDDDA SVMEAFIGGS DQSSLFPPSP PPPAQSQFNE 60 DTLQQRLQAL IEGANESWTY AVFWQSSYDF AGEDDGGGES RNTAVLGWGD GYYKGEEENS 120 RKKKSNPASA AEQEHRRRVI RELNALISGG GGVVNNGGGS DEAGDEEVTD TEWFFLVSMT 180 QSFVSGTGLP GQAFSNSNTI WLSGSNALAG SSCERARQGQ IYGLQTMVCV PCENGVVELG 240 SSEIIHQSSD LVDKVDTFFN FNNGGGESGS WAFNLNPDQG ENDPGLWIGE PDSVGVELGL 300 VAPVMNNTGN NSASNSDSQP ISKLCNGSSV EDPKPQVTKS SEMVSFKNGT DENGFSGQSR 360 FMEEDSNKKR SPVSNNDEGM LSFTSVLPRP AKSGDSNHSD LEASVVKEAE SNRTVVEPEK 420 KPRKRGRKPA NGREEPLNHV EAERQRREKL NQRFYSLRAV VPNVSKMDKA SLLGDAISYI 480 NELKSKLQKV ESDKEELQKQ IEGMSKEAAN EKSSVKERKC ANQESGVSIE MEVDVKIIGW 540 DAMIRVQCSK RNHPGAKFME ALKELDLEVN HASLSVVNDL MIQQATVKMG REFFTQDQLK 600 VALMEKVGEC L*

Sequence ? help Back to Top

Protein Sequence Length: 612 aa Download sequence Send to blast

MSPTSVQITD YHLNQSTNGT TNLWSNDDDA SVMEAFIGGS DQSSLFPPSP PPPAQSQFNE  60
DTLQQRLQAL IEGANESWTY AVFWQSSYDF AGEDDGGGES RNTAVLGWGD GYYKGEEENS  120
RKKKSNPASA AEQEHRRRVI RELNALISGG GGVVNNGGGS DEAGDEEVTD TEWFFLVSMT  180
QSFVSGTGLP GQAFSNSNTI WLSGSNALAG SSCERARQGQ IYGLQTMVCV PCENGVVELG  240
SSEIIHQSSD LVDKVDTFFN FNNGGGESGS WAFNLNPDQG ENDPGLWIGE PDSVGVELGL  300
VAPVMNNTGN NSASNSDSQP ISKLCNGSSV EDPKPQVTKS SEMVSFKNGT DENGFSGQSR  360
FMEEDSNKKR SPVSNNDEGM LSFTSVLPRP AKSGDSNHSD LEASVVKEAE SNRTVVEPEK  420
KPRKRGRKPA NGREEPLNHV EAERQRREKL NQRFYSLRAV VPNVSKMDKA SLLGDAISYI  480
NELKSKLQKV ESDKEELQKQ IEGMSKEAAN EKSSVKERKC ANQESGVSIE MEVDVKIIGW  540
DAMIRVQCSK RNHPGAKFME ALKELDLEVN HASLSVVNDL MIQQATVKMG REFFTQDQLK  600
VALMEKVGEC L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rru_A	6e-93	20	255	3	227	Transcription factor MYC3
4ywc_A	6e-93	20	255	3	227	Transcription factor MYC3
4ywc_B	6e-93	20	255	3	227	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	419	427	KKPRKRGRK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in jasmonic acid (JA) gene regulation. With MYC2 and MYC3, controls additively subsets of JA-dependent responses. Can form complexes with all known glucosinolate-related MYBs to regulate glucosinolate biosynthesis. Binds to the G-box (5'-CACGTG-3') of promoters. Activates multiple TIFY/JAZ promoters. {ECO:0000269\|PubMed:21321051, ECO:0000269\|PubMed:21335373, ECO:0000269\|PubMed:23943862}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00086	PBM	Transfer from AT4G17880	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.3356s0080.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By UV treatment. Not induced by jasmonic acid. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:21335373}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF251689	0.0	AF251689.1 Arabidopsis thaliana putative transcription factor BHLH4 (BHLH4) mRNA, complete cds.
GenBank	AK221507	0.0	AK221507.1 Arabidopsis thaliana mRNA for putative transcription factor BHLH4, complete cds, clone: RAFL07-57-K04.
GenBank	AL021889	0.0	AL021889.2 Arabidopsis thaliana DNA chromosome 4, BAC clone T6K21 (ESSA project).
GenBank	AL161547	0.0	AL161547.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 47.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006283348.1	0.0	transcription factor MYC4
Swissprot	O49687	0.0	MYC4_ARATH; Transcription factor MYC4
TrEMBL	R0F4A8	0.0	R0F4A8_9BRAS; Uncharacterized protein
STRING	Cagra.3356s0080.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1265	28	96

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G17880.1	0.0	bHLH family protein

Link Out ? help Back to Top
Phytozome	Cagra.3356s0080.1.p

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Chico JM, et al. Repression of Jasmonate-Dependent Defenses by Shade Involves Differential Regulation of Protein Stability of MYC Transcription Factors and Their JAZ Repressors in Arabidopsis. Plant Cell, 2014. 26(5): p. 1967-1980 [PMID:24824488] Gasperini D, et al. Multilayered Organization of Jasmonate Signalling in the Regulation of Root Growth. PLoS Genet., 2015. 11(6): p. e1005300 [PMID:26070206] Qi T, et al. Regulation of Jasmonate-Induced Leaf Senescence by Antagonism between bHLH Subgroup IIIe and IIId Factors in Arabidopsis. Plant Cell, 2015. 27(6): p. 1634-49 [PMID:26071420] de Torres Zabala M, et al. Novel JAZ co-operativity and unexpected JA dynamics underpin Arabidopsis defence responses to Pseudomonas syringae infection. New Phytol., 2016. 209(3): p. 1120-34 [PMID:26428397] Yu J, et al. JAZ7 negatively regulates dark-induced leaf senescence in Arabidopsis. J. Exp. Bot., 2016. 67(3): p. 751-62 [PMID:26547795] Chen X,Huang H,Qi T,Liu B,Song S New perspective of the bHLH-MYB complex in jasmonate-regulated plant fertility in arabidopsis. Plant Signal Behav, 2016. 11(2): p. e1135280 [PMID:26829586] Schmiesing A,Emonet A,Gouhier-Darimont C,Reymond P Arabidopsis MYC Transcription Factors Are the Target of Hormonal Salicylic Acid/Jasmonic Acid Cross Talk in Response to Pieris brassicae Egg Extract. Plant Physiol., 2016. 170(4): p. 2432-43 [PMID:26884488] Thatcher LF, et al. Characterization of a JAZ7 activation-tagged Arabidopsis mutant with increased susceptibility to the fungal pathogen Fusarium oxysporum. J. Exp. Bot., 2016. 67(8): p. 2367-86 [PMID:26896849] Gao C, et al. MYC2, MYC3, and MYC4 function redundantly in seed storage protein accumulation in Arabidopsis. Plant Physiol. Biochem., 2016. 108: p. 63-70 [PMID:27415132] Gimenez-Ibanez S, et al. JAZ2 controls stomata dynamics during bacterial invasion. New Phytol., 2017. 213(3): p. 1378-1392 [PMID:28005270] Lian TF,Xu YP,Li LF,Su XD Crystal Structure of Tetrameric Arabidopsis MYC2 Reveals the Mechanism of Enhanced Interaction with DNA. Cell Rep, 2017. 19(7): p. 1334-1342 [PMID:28514654] Wang H, et al. The bHLH Transcription Factors MYC2, MYC3, and MYC4 Are Required for Jasmonate-Mediated Inhibition of Flowering in Arabidopsis. Mol Plant, 2017. 10(11): p. 1461-1464 [PMID:28827172] Song S, et al. MYC5 is Involved in Jasmonate-Regulated Plant Growth, Leaf Senescence and Defense Responses. Plant Cell Physiol., 2017. 58(10): p. 1752-1763 [PMID:29017003] Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884]