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

Carubv10001850m

Common Name

CARUB_v10001850mg

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

TCP

Protein Properties

Length: 239aa MW: 25018 Da PI: 10.4573

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10001850m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	122.5	4.9e-38	23	173	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssas...nsssg.... 88 a+kk +++++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ ++s s s+ + Carubv10001850m 23 AVKKPPSKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFS-TASLSTSSPftlG---Krvvr 112 79**************************************************************99999666.2222222222220...12333 PP TCP 89 ............................................................k 89 + Carubv10001850m 113 aeeaesnagggltvghtmgttslmsgaggsagfwavparpdfgqvwsfaagappemvfaqQ 173 3333344566777777777777777777788888888888888888776666666655552 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	28.209	29	83	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	3.0E-33	29	188	IPR005333	Transcription factor, TCP

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0042752	Biological Process	regulation of circadian rhythm
GO:0043433	Biological Process	negative regulation of sequence-specific DNA binding transcription factor activity
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 239 aa Download sequence Send to blast
MANNDGAVTN GVILEQIKGP LNAVKKPPSK DRHSKVDGRG RRIRMPIICA ARVFQLTREL 60 GHKSDGQTIE WLLRQAEPSI IAATGTGTTP ASFSTASLST SSPFTLGKRV VRAEEAESNA 120 GGGLTVGHTM GTTSLMSGAG GSAGFWAVPA RPDFGQVWSF AAGAPPEMVF AQQQQPATLF 180 VRHQQQQQQQ QQASAAAMGE ASAARVGNYL PGHHLNLLAS LSGGANGSGR REDDHDPR*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the regulation of the circadian clock. Acts as a repressor of CCA1 by binding to its promoter. No binding to the LHY promoter. {ECO:0000269\|PubMed:19286557}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00499	DAP	Transfer from AT5G08330	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10001850m

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006288561.1	1e-174	transcription factor TCP21
Swissprot	Q9FTA2	1e-126	TCP21_ARATH; Transcription factor TCP21
TrEMBL	R0GX40	1e-173	R0GX40_9BRAS; Uncharacterized protein
STRING	Cagra.1365s0040.1.p	1e-174	(Capsella grandiflora)
STRING	XP_006288561.1	1e-174	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1782	26	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G08330.1	2e-83	TCP family protein

Link Out ? help Back to Top
Phytozome	Carubv10001850m
Entrez Gene	17882513

Publications ? help Back to Top
Wu JF, et al. LWD-TCP complex activates the morning gene CCA1 in Arabidopsis. Nat Commun, 2016. 7: p. 13181 [PMID:27734958] Ng DW,Chen HH,Chen ZJ Heterologous protein-DNA interactions lead to biased allelic expression of circadian clock genes in interspecific hybrids. Sci Rep, 2017. 7: p. 45087 [PMID:28345627] Lee CM, et al. Decoys Untangle Complicated Redundancy and Reveal Targets of Circadian Clock F-Box Proteins. Plant Physiol., 2018. 177(3): p. 1170-1186 [PMID:29794020]