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

Csa04g013720.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

TCP

Protein Properties

Length: 328aa MW: 34674 Da PI: 7.2892

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa04g013720.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	126.1	3.8e-39	81	167	3	88
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssasnsssg 88 +k+++++++hTkv+gR+RR+R++a+caar+F+L++eLG+++d++ti+WLlqqa+p+i+++tg+++++as+ +a++s+s++++++ + Csa04g013720.1 81 PKRSSNKDRHTKVEGRGRRIRMPALCAARIFQLTRELGHKSDGETIQWLLQQAEPSIIAATGSGTIPASALaSAAASVSNHHHQGGS 167 6999****************************************************************9996666666666655544 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.5E-31	85	163	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	28.016	86	140	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008361	Biological Process	regulation of cell size
GO:1900056	Biological Process	negative regulation of leaf senescence
GO:0005634	Cellular Component	nucleus
GO:0000987	Molecular Function	core promoter proximal region sequence-specific DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
MDPKNLNRHQ VPNFLNPSSH PQPPLNQGMG DNDDINKDDN RKSTEIKDFQ IVVSASSDNK 60 EPNNNNNTTI KKSQNQNQLG PKRSSNKDRH TKVEGRGRRI RMPALCAARI FQLTRELGHK 120 SDGETIQWLL QQAEPSIIAA TGSGTIPASA LASAAASVSN HHHQGGSLTA GLMISHDLVD 180 GGGSSSGRPP NWGIGGGEGA SSRSNLPTGL WPNVAGFGSG VPTTGLMSEG AGYRIGFPGF 240 DFPGVGPMSF ASILGGAGGN NHQMPGLELG LSQEGNVGVL NPQSFNQIYQ QMSQAQAQGR 300 VSHHIHHNHE DHQQESGEKD DSQGSGR*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds to the site II motif (3'-TGGGCC/T-5') in the promoter of PCNA-2 and to 3'-GCCCG/A-5' elements in the promoters of cyclin CYCB1-1 and ribosomal protein genes. {ECO:0000269\|PubMed:12631321, ECO:0000269\|PubMed:16123132}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00005	PBM	Transfer from 484486	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa04g013720.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB026649	0.0	AB026649.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MOJ10.
GenBank	AJ291749	0.0	AJ291749.1 Arabidopsis thaliana mRNA for putative transcription factor (PCF1 gene).
GenBank	AK118178	0.0	AK118178.1 Arabidopsis thaliana At3g27010 mRNA for unknown protein, complete cds, clone: RAFL19-49-P20.
GenBank	BT006043	0.0	BT006043.1 Arabidopsis thaliana clone U50934 unknown protein (At3g27010) mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010502659.1	0.0	PREDICTED: transcription factor TCP20-like
Swissprot	Q9LSD5	1e-159	TCP20_ARATH; Transcription factor TCP20
TrEMBL	R0HDZ9	0.0	R0HDZ9_9BRAS; Uncharacterized protein
STRING	XP_010502659.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4050	27	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G27010.1	1e-129	TCP family protein

Publications ? help Back to Top
Zhu P, et al. Arabidopsis small nucleolar RNA monitors the efficient pre-rRNA processing during ribosome biogenesis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(42): p. 11967-11972 [PMID:27708161] Wu JF, et al. LWD-TCP complex activates the morning gene CCA1 in Arabidopsis. Nat Commun, 2016. 7: p. 13181 [PMID:27734958] Guan P, et al. Interacting TCP and NLP transcription factors control plant responses to nitrate availability. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(9): p. 2419-2424 [PMID:28202720] Guan P Dancing with Hormones: A Current Perspective of Nitrate Signaling and Regulation in Arabidopsis. Front Plant Sci, 2017. 8: p. 1697 [PMID:29033968] Zhang N, et al. MOS1 functions closely with TCP transcription factors to modulate immunity and cell cycle in Arabidopsis. Plant J., 2018. 93(1): p. 66-78 [PMID:29086441] 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] Konishi N,Okubo T,Yamaya T,Hayakawa T,Minamisawa K Nitrate Supply-Dependent Shifts in Communities of Root-Associated Bacteria in Arabidopsis. Microbes Environ., 2017. 32(4): p. 314-323 [PMID:29187692]