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_00657.1_g00006.1

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: 238aa MW: 24933.8 Da PI: 9.8483

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00657.1_g00006.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	126.2	3.4e-39	25	194	2	108
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssasnss 86 a+kk +++++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ + s s+s Rsa1.0_00657.1_g00006.1 25 AVKKPPTKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFStA-SLSTTSSS--- 106 79**************************************************************9999987732.22222222... PP TCP 87 sg..................................................................kaaksaa.kskksqksaa 105 + ++++++ ++++q++++ Rsa1.0_00657.1_g00006.1 107 -PftlgkrvraeeggesgpgggeltvgptmgasvmsggggfwavparqdfgqvwsfaagatpemlftqQQQAATLfVRQQQQQQQQ 191 .1222234555566667778888888888888888888888888888888888887776666666665222222222222222222 PP TCP 106 sal 108 + Rsa1.0_00657.1_g00006.1 192 ASA 194 223 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	28.287	31	85	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	4.7E-34	31	181	IPR005333	Transcription factor, TCP

Sequence ? help Back to Top
Protein Sequence Length: 238 aa Download sequence Send to blast
MENNDGAMTN GVIVEHTSAK GPLNAVKKPP TKDRHSKVDG RGRRIRMPII CAARVFQLTR 60 ELGHKSDGQT IEWLLRQAEP SIIAATGTGT TPASFSTASL STTSSSPFTL GKRVRAEEGG 120 ESGPGGGELT VGPTMGASVM SGGGGFWAVP ARQDFGQVWS FAAGATPEML FTQQQQAATL 180 FVRQQQQQQQ QASAAVAAMG EASAARVGNY LPGHHLNLLA SLSGGNTGSG RREEDDSR

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00657.1_g00006.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018472268.1	1e-174	PREDICTED: transcription factor TCP21
Swissprot	Q9FTA2	1e-111	TCP21_ARATH; Transcription factor TCP21
TrEMBL	R0GX40	1e-117	R0GX40_9BRAS; Uncharacterized protein
STRING	Cagra.1365s0040.1.p	1e-118	(Capsella grandiflora)
STRING	XP_006288561.1	1e-118	(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	3e-76	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]