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

Sopim01g109700.0.1

Organism

Solanum pimpinellifolium

Taxonomic ID

4084

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

bHLH

Protein Properties

Length: 435aa MW: 48626.4 Da PI: 6.3625

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopim01g109700.0.1	genome	CSHL	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	28.4	2.9e-09	239	286	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h+ +Er RR++i +++ L++l+P + +k Ka +L + ++Y++sLq Sopim01g109700.0.1 239 SHSLAERVRREKISERMRFLQDLVPGC----NKITGKAGMLDEIINYVQSLQ 286 8************************....999***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.44E-16	233	302	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.38E-9	233	290	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.5E-16	235	302	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.485	235	285	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.5E-6	239	286	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.4E-8	241	291	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: 435 aa Download sequence Send to blast
MNIALPEMLH NITSNGSSEL SVLDRTKWQV QQQEMSYFNG QNDQLMNSFH QTAEAQQFHG 60 LINVNDQSLN ELVTRAIKPD PCMENSWGGF GTTGTNGFDY VPVGVGHGGM SHPSEMNYAI 120 SRTTSCPPTM ADNVVKPKDT RLSSNRGRES FKKRKADKNQ HLKEVAEEET KDKKLKECIE 180 EEDDSSKVTT EKKSNKRSAT NSSNSKENSD TSKEKSKITD DKKLDYIHVR ARRGQATDSH 240 SLAERVRREK ISERMRFLQD LVPGCNKITG KAGMLDEIIN YVQSLQRQVE FLSMKLAAVN 300 PRLDIDADNF FNKDIFATST STFSAVGAGT SSEMLSMAQR QFNSLQQIMS SSGLEMGIVN 360 LNEMALRRTT SAPVPIPEMF LDSSSINQVQ SFQTWNTDLD NMYAMELQQG RSAQFLPHPC 420 TGFAEAGHDL KMEM*

Sequence ? help Back to Top

Protein Sequence Length: 435 aa Download sequence Send to blast

MNIALPEMLH NITSNGSSEL SVLDRTKWQV QQQEMSYFNG QNDQLMNSFH QTAEAQQFHG  60
LINVNDQSLN ELVTRAIKPD PCMENSWGGF GTTGTNGFDY VPVGVGHGGM SHPSEMNYAI  120
SRTTSCPPTM ADNVVKPKDT RLSSNRGRES FKKRKADKNQ HLKEVAEEET KDKKLKECIE  180
EEDDSSKVTT EKKSNKRSAT NSSNSKENSD TSKEKSKITD DKKLDYIHVR ARRGQATDSH  240
SLAERVRREK ISERMRFLQD LVPGCNKITG KAGMLDEIIN YVQSLQRQVE FLSMKLAAVN  300
PRLDIDADNF FNKDIFATST STFSAVGAGT SSEMLSMAQR QFNSLQQIMS SSGLEMGIVN  360
LNEMALRRTT SAPVPIPEMF LDSSSINQVQ SFQTWNTDLD NMYAMELQQG RSAQFLPHPC  420
TGFAEAGHDL KMEM*

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}.

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT014300	0.0	BT014300.1 Lycopersicon esculentum clone 133550R, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001335303.1	0.0	basic helix-loop-helix (bHLH) DNA-binding superfamily protein
Swissprot	Q8GY61	7e-60	BH063_ARATH; Transcription factor bHLH63
TrEMBL	A0A3Q7EUU6	0.0	A0A3Q7EUU6_SOLLC; Uncharacterized protein
STRING	Solyc01g109700.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA6538	23	30

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G34530.1	2e-62	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]