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

30192.m000545

Common Name

RCOM_1693000

Organism

Ricinus communis

Taxonomic ID

3988

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus

Family

TCP

Protein Properties

Length: 595aa MW: 65709.2 Da PI: 8.2447

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
30192.m000545	genome	JCVI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	112.7	5.1e-35	214	324	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.....................ssssaseceae 76 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak+ai+el ++ 30192.m000545 214 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKAAIDELEELpawnpttavakdstqigderdY---------- 299 79**************************************************************5554443333333322222220.......... PP TCP 77 sssssasnsssg.......................k 89 + 30192.m000545 300 -----------QlpvennldaiggntktpaatattT 324 ...........1333333444444444443333220 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.3E-31	214	314	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.295	216	274	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009793	Biological Process	embryo development ending in seed dormancy
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 595 aa Download sequence Send to blast
MAEAFGRGSS NNRRRYHSGC SSCTSNKKRL RRSRGKDRVV KKAPTSKEKC CPCPPLKAGT 60 EKAQGPESGS SKESPSSPTS PSPLSASTSR DSWEGEGEEQ PKQPDHYYHQ ELPFIVHHQY 120 LQTTQPQQEQ SQHLYQRLDL QQLQIPLHPP KKRSHFSSSS STSIIQEQGF EYARKMGESQ 180 RQHQQQPARS SRLGTRNTVG EIVEVQGGHI VRSTGRKDRH SKVCTAKGPR DRRVRLSAHT 240 AIQFYDVQDR LGYDRPSKAV DWLIKKAKAA IDELEELPAW NPTTAVAKDS TQIGDERDYQ 300 LPVENNLDAI GGNTKTPAAT ATTTTTAADV QGIEQQQHLA ENPNNSSSFL PPSLDSDAIA 360 DTIKSFFPMG ATAETTQFQS YPPDLLSRTS SQNQDLRLSL HSFQEPILLQ QQHHHHGHAQ 420 NEQQVLLSSG TAAHHFGFDG SSAGWSEHHQ NHSADIARFQ RMIAWNAAAA AVDATDTGSG 480 GTSGSRGGGF IFNPILPQTV SPTPLLQPLF GQSNQFLSQR GPLQSSNMPS IRAWIDPGAD 540 HHHHHHTQIS QLHHHHQQSF GGISGFRVPA RIQGEEEEHD GIHNKPSSVS SDSRH

Sequence ? help Back to Top

Protein Sequence Length: 595 aa Download sequence Send to blast

MAEAFGRGSS NNRRRYHSGC SSCTSNKKRL RRSRGKDRVV KKAPTSKEKC CPCPPLKAGT  60
EKAQGPESGS SKESPSSPTS PSPLSASTSR DSWEGEGEEQ PKQPDHYYHQ ELPFIVHHQY  120
LQTTQPQQEQ SQHLYQRLDL QQLQIPLHPP KKRSHFSSSS STSIIQEQGF EYARKMGESQ  180
RQHQQQPARS SRLGTRNTVG EIVEVQGGHI VRSTGRKDRH SKVCTAKGPR DRRVRLSAHT  240
AIQFYDVQDR LGYDRPSKAV DWLIKKAKAA IDELEELPAW NPTTAVAKDS TQIGDERDYQ  300
LPVENNLDAI GGNTKTPAAT ATTTTTAADV QGIEQQQHLA ENPNNSSSFL PPSLDSDAIA  360
DTIKSFFPMG ATAETTQFQS YPPDLLSRTS SQNQDLRLSL HSFQEPILLQ QQHHHHGHAQ  420
NEQQVLLSSG TAAHHFGFDG SSAGWSEHHQ NHSADIARFQ RMIAWNAAAA AVDATDTGSG  480
GTSGSRGGGF IFNPILPQTV SPTPLLQPLF GQSNQFLSQR GPLQSSNMPS IRAWIDPGAD  540
HHHHHHTQIS QLHHHHQQSF GGISGFRVPA RIQGEEEEHD GIHNKPSSVS SDSRH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	9e-20	221	274	1	54	Putative transcription factor PCF6
5zkt_B	9e-20	221	274	1	54	Putative transcription factor PCF6
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	150	154	KKRSH

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor playing 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) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:15634699, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18816164, ECO:0000269\|PubMed:25378179}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00009	PBM	Transfer from 929286	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	30192.m000545

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:18816164}.

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_015574905.1	0.0	transcription factor TCP4
Swissprot	Q8LPR5	1e-106	TCP4_ARATH; Transcription factor TCP4
TrEMBL	B9S0P2	0.0	B9S0P2_RICCO; Uncharacterized protein
STRING	XP_002519561.1	0.0	(Ricinus communis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1163	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G53230.1	2e-80	TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 3

Link Out ? help Back to Top
Phytozome	30192.m000545

Publications ? help Back to Top
Schommer C, et al. Control of jasmonate biosynthesis and senescence by miR319 targets. PLoS Biol., 2008. 6(9): p. e230 [PMID:18816164] Ju Y, et al. Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments. Plant Cell, 2016. 28(9): p. 2131-2146 [PMID:27468890] Challa KR,Aggarwal P,Nath U Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis. Plant Cell, 2016. 28(9): p. 2117-2130 [PMID:27597774] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638] Sun X, et al. Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor. Plant Biotechnol. J., 2017. 15(10): p. 1284-1294 [PMID:28233945] Kubota A, et al. TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis. PLoS Genet., 2017. 13(6): p. e1006856 [PMID:28628608] 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] Vadde BVL,Challa KR,Nath U The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana. Plant J., 2018. 93(2): p. 259-269 [PMID:29165850] Challa KR,Rath M,Nath U The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways. PLoS Genet., 2019. 15(2): p. e1007988 [PMID:30742619]