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

Carubv10009582m

Common Name

CARUB_v10009313mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

Trihelix

Protein Properties

Length: 354aa MW: 40300.1 Da PI: 8.3006

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10009582m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	85	9e-27	89	170	2	86
trihelix 2 WtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 W ++e++ Li +rr m+ ++++k++k+lWe++s+kmre+gf rsp++C++kw+nl k++kk k +++++ s +++y++++e Carubv10009582m 89 WVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISAKMREKGFDRSPTMCTDKWRNLLKEFKKAKYHDRGN---GSAKMSYYKEIE 170 ******************************************************************84...566899*998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	4.3E-4	79	150	IPR009057	Homeodomain-like
PROSITE profile	PS50090	7.979	81	145	IPR017877	Myb-like domain
SMART	SM00717	0.0096	85	147	IPR001005	SANT/Myb domain
CDD	cd12203	1.97E-29	87	152	No hit	No description
Pfam	PF13837	3.3E-20	88	171	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0042802	Molecular Function	identical protein binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 354 aa Download sequence Send to blast
MFISDKSRPT DFYKDDNPNS STAATRDMMI DVTTPNEAVV DLQPHHHHHH HHHNHNHHLN 60 QSQPQQILLG DSSSEDHEVK APKKRAETWV QDETRSLIMF RRGMDGLFNT SKSNKHLWEQ 120 ISAKMREKGF DRSPTMCTDK WRNLLKEFKK AKYHDRGNGS AKMSYYKEIE DILRERSKKV 180 TTTQYNKSPS TPPPTTAKVD SFMQFSDKGF DDTSISFGSV EANGRPALNL ERRLDHDGHP 240 LAITTVDAVA ANGVTPWNWR ETPGNGGDGH GQPFGGRVIT VKFGDYTRRI GIDGSCEAIK 300 EAIRSAFGLR TRRAFWLEDE DQIVRSLDRE MPLGNYLLHL DDGKIKLNIV WIV*

Sequence ? help Back to Top

Protein Sequence Length: 354 aa Download sequence Send to blast

MFISDKSRPT DFYKDDNPNS STAATRDMMI DVTTPNEAVV DLQPHHHHHH HHHNHNHHLN  60
QSQPQQILLG DSSSEDHEVK APKKRAETWV QDETRSLIMF RRGMDGLFNT SKSNKHLWEQ  120
ISAKMREKGF DRSPTMCTDK WRNLLKEFKK AKYHDRGNGS AKMSYYKEIE DILRERSKKV  180
TTTQYNKSPS TPPPTTAKVD SFMQFSDKGF DDTSISFGSV EANGRPALNL ERRLDHDGHP  240
LAITTVDAVA ANGVTPWNWR ETPGNGGDGH GQPFGGRVIT VKFGDYTRRI GIDGSCEAIK  300
EAIRSAFGLR TRRAFWLEDE DQIVRSLDRE MPLGNYLLHL DDGKIKLNIV WIV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2jmw_A	1e-55	83	168	1	86	DNA binding protein GT-1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds specifically to the core DNA sequence 5'-GGTTAA-3'. May act as a molecular switch in response to light signals. {ECO:0000269\|PubMed:10437822, ECO:0000269\|PubMed:15044016, ECO:0000269\|PubMed:7866025}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00004	PBM	Transfer from 920224	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10009582m

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	AK228305	0.0	AK228305.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-74-C23.
GenBank	ATHGT	0.0	L36806.1 Arabidopsis thaliana (clone pDGT1) GT-1 mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006307687.1	0.0	trihelix transcription factor GT-1 isoform X1
Swissprot	Q9FX53	0.0	TGT1_ARATH; Trihelix transcription factor GT-1
TrEMBL	R0GXP3	0.0	R0GXP3_9BRAS; Uncharacterized protein
STRING	XP_006307687.1	0.0	(Capsella rubella)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G13450.1	0.0	Trihelix family protein

Link Out ? help Back to Top
Phytozome	Carubv10009582m
Entrez Gene	17899474

Publications ? help Back to Top
Le Gourrierec J,Li YF,Zhou DX Transcriptional activation by Arabidopsis GT-1 may be through interaction with TFIIA-TBP-TATA complex. Plant J., 1999. 18(6): p. 663-8 [PMID:10417717]