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

RrC11789_p1

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: 328aa MW: 35905.3 Da PI: 7.4833

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC11789_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	116.4	3.7e-36	26	139	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt...................ssssaseceaessss 80 +gkkdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LGfd++sk+++WL+++ak ai++l+++ s RrC11789_p1 26 TGKKDRHSKVCTAKGPRDRRVRLSAPTAIQFYDVQDRLGFDRPSKAVDWLIKKAKSAIDDLAELppwnpadtirqaaankpkrS-------------- 109 79**************************************************************65554444433332221110.............. PP TCP 81 sasnsssg............................k 89 + + RrC11789_p1 110 -------KtlipppatteihggsgeetehhpsvflpA 139 .......122223333333333333333444444542 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	4.0E-32	26	95	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.07	28	86	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
RHQSALEHGG CGEIVEVEGG HIVRSTGKKD RHSKVCTAKG PRDRRVRLSA PTAIQFYDVQ 60 DRLGFDRPSK AVDWLIKKAK SAIDDLAELP PWNPADTIRQ AAANKPKRSK TLIPPPATTE 120 IHGGSGEETE HHPSVFLPAA SIYHQPPSRA DTQSQDLRLS LHSFQKAPPF AGETEHALFS 180 GQSNPLGFDS STASWDQSQQ NHRLVTWNNG GAADSAASGG GGFVFASPAT TTSYQPQSQF 240 FSQRGPLQSI NTPMLRAWFD PYHHHQSVTT NDHHHHHHHY HPYQSAIPGI AFASSGELSG 300 LRVPAARYQS EQDDHGDKPS SDSSDSRH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	8e-20	33	86	1	54	Putative transcription factor PCF6
5zkt_B	8e-20	33	86	1	54	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). {ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:25378179}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00203	DAP	Transfer from AT1G53230	Download

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_006392814.1	1e-159	transcription factor TCP3
Refseq	XP_006392815.1	1e-159	transcription factor TCP3
Swissprot	Q9MAH8	1e-138	TCP3_ARATH; Transcription factor TCP3
TrEMBL	V4JXC2	1e-158	V4JXC2_EUTSA; Uncharacterized protein
STRING	XP_006392814.1	1e-159	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2408	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G53230.1	1e-111	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 3

Publications ? help Back to Top
Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] 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] Mazur MJ, et al. Arabidopsis TCP Transcription Factors Interact with the SUMO Conjugating Machinery in Nuclear Foci. Front Plant Sci, 2017. 8: p. 2043 [PMID:29250092]