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

Csa12g009050.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 339aa MW: 37901.6 Da PI: 5.1652

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa12g009050.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.6	6.3e-10	182	229	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h+++Er RR++i +++ L++l+P + +k Ka +L + ++Y++sLq Csa12g009050.1 182 SHSIAERVRREKISERMKFLQDLVPGC----DKITGKAGMLDEIINYVQSLQ 229 8***********************9....899***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.15E-16	176	247	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.47E-11	176	233	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.4E-16	178	239	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.593	178	228	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.5E-7	182	229	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.0E-8	184	234	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006351	Biological Process	transcription, DNA-templated
GO:0009637	Biological Process	response to blue light
GO:0009911	Biological Process	positive regulation of flower development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 339 aa Download sequence Send to blast
MNRAIEADLL LNYNTDMSVL ERQRAHLKYL NPGFDSPLAG FFSDSSMING GVIDGFLGTD 60 GLNLPMIYGD TTVEGDPRLS ISPETMIGTG NFKKRKFDTE TKDCDGKKKK IMMMNREDEV 120 EEEEDEKSKL TEQNNGSTRS IKKMKNKAKK EENSYSSDSS KVTIQKTDYI HVRARRGQAT 180 DSHSIAERVR REKISERMKF LQDLVPGCDK ITGKAGMLDE IINYVQSLQR QIEFLSMKLA 240 VVNPRPDFDM DDIFAKEVAS STPMTVVPSP EMVNSGYSHE MVNSGYSNEM VSSGYLHFNP 300 MQQVDTTSSD PLSSCFNNGQ APSMWDSHVQ NLYGSLGV*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	93	109	KRKFDTETKDCDGKKKK

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	Csa12g009050.1

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	AK117846	0.0	AK117846.1 Arabidopsis thaliana At4g34530 mRNA for putative bHLH transcription factor (bHLH063), complete cds, clone: RAFL18-04-K08.
GenBank	AY120741	0.0	AY120741.1 Arabidopsis thaliana unknown protein (At4g34530:At4g34540) mRNA, complete cds.
GenBank	BT005313	0.0	BT005313.1 Arabidopsis thaliana At4g34530 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010447065.1	0.0	PREDICTED: transcription factor bHLH63-like
Swissprot	Q8GY61	0.0	BH063_ARATH; Transcription factor bHLH63
TrEMBL	R0F5T5	0.0	R0F5T5_9BRAS; Uncharacterized protein
STRING	XP_010447065.1	0.0	(Camelina sativa)

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	0.0	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]