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

Tp3g29570

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: 372aa MW: 42425.4 Da PI: 5.8502

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp3g29570	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	29.6	1.2e-09	187	234	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h+ +Er RR++i +++ L++l+P + +k Ka +L + ++Y++sLq Tp3g29570 187 SHSLAERVRREKISERMKFLQDLVPGC----NKITGKAGMLDEIINYVQSLQ 234 8************************....999***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.26E-16	181	252	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.53E-10	181	238	No hit	No description
PROSITE profile	PS50888	15.586	183	233	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.9E-16	183	250	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.0E-7	187	234	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.2E-8	189	239	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: 372 aa Download sequence Send to blast
MKRAIASDNI LNLTDKSVLE HQRDRLKCHH SLHQPGYDTS FSTFFSEPIV GSISPNPGFE 60 NVWSGFRFGS LHVSYGEEAE DNKETPSISS ETSRSESFKK MKLESVMGVG ALMEEDDKEQ 120 KNKKMIRRFE NEEDEEEKSK ITEETIGSTK SITKKKKVTK KQQNSSNDSS KNDYIHVRAR 180 RGQATDSHSL AERVRREKIS ERMKFLQDLV PGCNKITGKA GMLDEIINYV QSLQSQIEFL 240 SMKLATVNPR LDFETVNDIL GKEVISEQTT SFTNVVMPSH DMVNSDYVHF NPVQQMVQYS 300 GTEATISDRI WDSEMQNLYT SLGFDQGLLQ LTTFANNSQP FSSDSLLKIR FFLYSFGRLD 360 EHKQLESGDV TF

Sequence ? help Back to Top

Protein Sequence Length: 372 aa Download sequence Send to blast

MKRAIASDNI LNLTDKSVLE HQRDRLKCHH SLHQPGYDTS FSTFFSEPIV GSISPNPGFE  60
NVWSGFRFGS LHVSYGEEAE DNKETPSISS ETSRSESFKK MKLESVMGVG ALMEEDDKEQ  120
KNKKMIRRFE NEEDEEEKSK ITEETIGSTK SITKKKKVTK KQQNSSNDSS KNDYIHVRAR  180
RGQATDSHSL AERVRREKIS ERMKFLQDLV PGCNKITGKA GMLDEIINYV QSLQSQIEFL  240
SMKLATVNPR LDFETVNDIL GKEVISEQTT SFTNVVMPSH DMVNSDYVHF NPVQQMVQYS  300
GTEATISDRI WDSEMQNLYT SLGFDQGLLQ LTTFANNSQP FSSDSLLKIR FFLYSFGRLD  360
EHKQLESGDV TF

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds DNA to G box 5'-CACGTG-3' and, to a lower extent, to E-box 5'-CANNTG-3' in vitro. Binds to chromatin DNA of the FT gene and promotes its expression, and thus triggers flowering in response to blue light. {ECO:0000269\|PubMed:18988809, ECO:0000269\|PubMed:24130508}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp3g29570

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Accumulates strongly in response to blue light due to reduced preventing 26S proteasome-mediated degradation in an ADO1/ZTL and ADO2/LKP2 dependent manner, but levels decrease in the absence of blue light via 26S proteasome degradation (at protein level). {ECO:0000269\|PubMed:24101505}.

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	AF488596	1e-67	AF488596.1 Arabidopsis thaliana clone bHLH063 putative bHLH transcription factor mRNA, complete cds.
GenBank	AK117846	1e-67	AK117846.1 Arabidopsis thaliana At4g34530 mRNA for putative bHLH transcription factor (bHLH063), complete cds, clone: RAFL18-04-K08.
GenBank	AY120741	1e-67	AY120741.1 Arabidopsis thaliana unknown protein (At4g34530:At4g34540) mRNA, complete cds.
GenBank	BT005313	1e-67	BT005313.1 Arabidopsis thaliana At4g34530 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024005396.1	6e-90	transcription factor bHLH63
Swissprot	Q8GY61	1e-82	BH063_ARATH; Transcription factor bHLH63
TrEMBL	A0A1J3F353	1e-87	A0A1J3F353_NOCCA; Transcription factor bHLH63 (Fragment)
TrEMBL	V4LSU8	9e-88	V4LSU8_EUTSA; Uncharacterized protein
STRING	XP_006412217.1	1e-88	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5947	25	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G34530.1	9e-61	cryptochrome-interacting basic-helix-loop-helix 1

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] Yang D,Zhao W,Meng Y,Li H,Liu B A CIB1-LIKE transcription factor GmCIL10 from soybean positively regulates plant flowering. Sci China Life Sci, 2015. 58(3): p. 261-9 [PMID:25651969] Katsura Y, et al. An optogenetic system for interrogating the temporal dynamics of Akt. Sci Rep, 2015. 5: p. 14589 [PMID:26423353] Taslimi A, et al. Optimized second-generation CRY2-CIB dimerizers and photoactivatable Cre recombinase. Nat. Chem. Biol., 2016. 12(6): p. 425-30 [PMID:27065233] Liu Q, et al. The Blue Light-Dependent Polyubiquitination and Degradation of Arabidopsis Cryptochrome2 Requires Multiple E3 Ubiquitin Ligases. Plant Cell Physiol., 2016. 57(10): p. 2175-2186 [PMID:27516416] Pathak GP, et al. Bidirectional approaches for optogenetic regulation of gene expression in mammalian cells using Arabidopsis cryptochrome 2. Nucleic Acids Res., 2017. 45(20): p. e167 [PMID:28431041] Duan L, et al. Understanding CRY2 interactions for optical control of intracellular signaling. Nat Commun, 2017. 8(1): p. 547 [PMID:28916751] Quejada JR, et al. Optimized light-inducible transcription in mammalian cells using Flavin Kelch-repeat F-box1/GIGANTEA and CRY2/CIB1. Nucleic Acids Res., 2017. 45(20): p. e172 [PMID:29040770] Liu Y, et al. CIB1 and CO interact to mediate CRY2-dependent regulation of flowering. EMBO Rep., 2019. [PMID:30126927]