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

RrC140_p4

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 380aa MW: 41770.5 Da PI: 8.9896

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC140_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.8	8e-38	53	191	2	134
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt...........ssssaseceaesssssasnsssg.. 88 g+kdrhsk+ T++g+RdRRvRls+++a +f+dLqd+LG+d++sk++eWL+++a+ +i el+++ + ++ +++ s + RrC140_p4 53 SGGKDRHSKVWTSKGPRDRRVRLSVSTALQFYDLQDRLGLDQPSKAVEWLIKAAEDSISELPSLnntnfpmndydN----NQIPTGTGAS-------Saa 141 689***********************************************************444333221110....1222222222.......123 PP TCP 89 ..kaaksaa.kskksqksaasalnlak.esrakarararertrekmrikn 134 ++ +++a +s++++++++s l+l++ e r kar+rarert+++ + ++ RrC140_p4 142 aaNSLSKSAcSSNSDTSKNSSGLSLSRsELRDKARERARERTAKETKERD 191 44445555546777777778889999999***********99988775 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.3E-37	54	189	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	30.942	55	113	IPR017887	Transcription factor TCP subgroup
PROSITE profile	PS51370	10.205	169	190	IPR017888	CYC/TB1, R domain

Sequence ? help Back to Top
Protein Sequence Length: 380 aa Download sequence Send to blast
MFIEKKFRNE IIGDDEMIGD LMKNNNGDVV DNNNRLSRWH HNSSRIIRVS RASGGKDRHS 60 KVWTSKGPRD RRVRLSVSTA LQFYDLQDRL GLDQPSKAVE WLIKAAEDSI SELPSLNNTN 120 FPMNDYDNNQ IPTGTGASSA AAANSLSKSA CSSNSDTSKN SSGLSLSRSE LRDKARERAR 180 ERTAKETKER DHHSTTTTSF TDLLNSGSDP VNANRQWMAP SSSSPPPPME YFSSGLILGS 240 GQTHFPIQTN SPHPFSSSPH QEFSFVPDHL MSPAGASGFN LDFNMSTTTS TAGFSGFNRG 300 TLQSNSTNHQ HHQSFLANLQ RFPSSSEGGG GGGGPQFLFG TGALPAENHH LHHHNNNSHQ 360 FQLYYENGRR NSDHKGNGKN

Sequence ? help Back to Top

Protein Sequence Length: 380 aa Download sequence Send to blast

MFIEKKFRNE IIGDDEMIGD LMKNNNGDVV DNNNRLSRWH HNSSRIIRVS RASGGKDRHS  60
KVWTSKGPRD RRVRLSVSTA LQFYDLQDRL GLDQPSKAVE WLIKAAEDSI SELPSLNNTN  120
FPMNDYDNNQ IPTGTGASSA AAANSLSKSA CSSNSDTSKN SSGLSLSRSE LRDKARERAR  180
ERTAKETKER DHHSTTTTSF TDLLNSGSDP VNANRQWMAP SSSSPPPPME YFSSGLILGS  240
GQTHFPIQTN SPHPFSSSPH QEFSFVPDHL MSPAGASGFN LDFNMSTTTS TAGFSGFNRG  300
TLQSNSTNHQ HHQSFLANLQ RFPSSSEGGG GGGGPQFLFG TGALPAENHH LHHHNNNSHQ  360
FQLYYENGRR NSDHKGNGKN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-22	60	114	1	55	Putative transcription factor PCF6
5zkt_B	1e-22	60	114	1	55	Putative transcription factor PCF6
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Functional Description ? help Back to Top
Source	Description
UniProt	Plays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). Participates in ovule develpment (PubMed:25378179). Participates in ovule develpment (PubMed:25378179). Promotes light-regulated transcription of CHS, CAB, HYH and HY5. Regulates positively photomorphogenesis (e.g. hypocotyl elongation inhibition and cotyledon opening in response to blue light) (PubMed:26596765). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179, ECO:0000269\|PubMed:26596765}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW (PubMed:12931144). Induced by blue light. Stabilized by light but labile in darkness due to proteasome-dependent proteolysis (at protein level) (PubMed:26596765). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:26596765}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189553	0.0	AC189553.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH006A08, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013706936.1	0.0	transcription factor TCP2-like
Swissprot	Q93V43	1e-175	TCP2_ARATH; Transcription factor TCP2
TrEMBL	A0A3P6EJF4	0.0	A0A3P6EJF4_BRAOL; Uncharacterized protein
STRING	Bo7g105960.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7615	25	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G18390.2	2e-56	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 2

Publications ? help Back to Top
Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375]