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

Rsa1.0_00058.1_g00008.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

TCP

Protein Properties

Length: 230aa MW: 24295.1 Da PI: 10.1464

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00058.1_g00008.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	122.2	5.8e-38	28	160	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssas...n 84 +kk + +++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ ++s s s+ Rsa1.0_00058.1_g00008.1 28 VKKKPPAKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFS-TASLSTSSPftlG 112 6799************************************************************99999766.2222222221220 PP TCP 85 sssg..............................................k 89 + + Rsa1.0_00058.1_g00008.1 113 ---KrvvraeeegesgelsaghtigasvmsgggfwavparndfgqvwsfaA 160 ...123333333334455555555566666666666666666666666552 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.2E-32	34	110	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	27.892	34	88	IPR017887	Transcription factor TCP subgroup

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: 230 aa Download sequence Send to blast
MSNGDGTVTN GVIVEQTSAT NKGALNAVKK KPPAKDRHSK VDGRGRRIRM PIICAARVFQ 60 LTRELGHKSD GQTIEWLLRQ AEPSIIAATG TGTTPASFST ASLSTSSPFT LGKRVVRAEE 120 EGESGELSAG HTIGASVMSG GGFWAVPARN DFGQVWSFAA GAPPEMLFTQ QQQQPPATLF 180 VRQQQQASAM GEASAARVGN YLPGHHLNLL ASLSGGNTGS GRREEEDNPR

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	Rsa1.0_00058.1_g00008.1

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	AC189332	0.0	AC189332.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB038E05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018442413.1	1e-169	PREDICTED: transcription factor TCP21-like
Swissprot	Q9FTA2	1e-111	TCP21_ARATH; Transcription factor TCP21
TrEMBL	A0A397XPX2	1e-127	A0A397XPX2_BRACM; Uncharacterized protein
TrEMBL	M4CYP1	1e-127	M4CYP1_BRARP; Uncharacterized protein
STRING	Bra009338.1-P	1e-128	(Brassica rapa)

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	8e-87	TCP family protein

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]