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_00670.1_g00003.1

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: 310aa MW: 34575.5 Da PI: 8.1632

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00670.1_g00003.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	109.2	6.2e-34	73	208	2	119
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasns 85 g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl++ak++i+el+ ++ s+++++ ++++s + s++ Rsa1.0_00670.1_g00003.1 73 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGLDQPSKAVDWLLNAAKEEIDELPPLPVSPETFSlfNHHQSFLNLSQP 158 689*************************************************************9999988877777777777755 PP TCP 86 ssg...............kaaksaa.kskksqksaasalnlak.esrakar 119 + + ++++ ++ +++++ s +++ e++++++ Rsa1.0_00670.1_g00003.1 159 PGQdptqlgfkingcvedQ-PNTTTsREETNSHHTGSYGTYQNmEQHQQQH 208 5557788888887777642.2222223333444443333333322222222 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	6.4E-30	75	194	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.748	75	133	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 310 aa Download sequence Send to blast
MNTVPWRDAN DDVSGGIRTR RDGEVQKDTE EAVVATSGKP VIKKPPTSIS SSSSSSSWMK 60 SKDPRIVRVS RAFGGKDRHS KVCTLRGLRD RRVRLSVPTA IQLYDLQERL GLDQPSKAVD 120 WLLNAAKEEI DELPPLPVSP ETFSLFNHHQ SFLNLSQPPG QDPTQLGFKI NGCVEDQPNT 180 TTSREETNSH HTGSYGTYQN MEQHQQQHTR FQADYPHHHQ HQLHSLVPIQ SQFLVCPVTA 240 PSTTTTIQSL FPSSSSAGSR TMETTDPRQM VSHFQMPLMG SFSSSQNISS LYSLLHGSSN 300 PMPSVQFDRK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-18	80	134	1	55	Putative transcription factor PCF6
5zkt_B	1e-18	80	134	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). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269\|PubMed:11161017, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00670.1_g00003.1

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	AC232459	0.0	AC232459.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB020F06, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018489088.1	0.0	PREDICTED: transcription factor TCP13
Swissprot	Q9S7W5	1e-154	TCP13_ARATH; Transcription factor TCP13
TrEMBL	A0A0D3CNA7	0.0	A0A0D3CNA7_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6ERH9	0.0	A0A3P6ERH9_BRAOL; Uncharacterized protein (Fragment)
STRING	Bo5g152840.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9134	26	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G02150.2	1e-147	plastid transcription factor 1

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Yamburenko MV,Zubo YO,Börner T Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5. Plant J., 2015. 82(6): p. 1030-41 [PMID:25976841] 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]