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_00300.1_g00010.1

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: 328aa MW: 34696 Da PI: 7.2391

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00300.1_g00010.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	120	2.8e-37	72	157	3	87
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssasnsss 87 +k+++++++h kv+gR+RR+R++a+caar+F+L++eLG+++d++ti+WLlqqa+p+i+++tg+++++as+ +a++ +s++++++ Rsa1.0_00300.1_g00010.1 72 PKRSSNKDRHIKVEGRGRRIRMPALCAARIFQLTRELGHKSDGETIQWLLQQAEPSIIAATGSGTIPASALaSAAAAAVSNHHHHH 157 6999****************************************************************888755444444444433 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	9.1E-30	76	155	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	27.28	77	131	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
MDPKNPNRHQ VPNFLNPPPR NHQVLGDASK DDDDDNHHHH SKPAEVKDFQ IVVAASDNSN 60 SSKKQQNQQL GPKRSSNKDR HIKVEGRGRR IRMPALCAAR IFQLTRELGH KSDGETIQWL 120 LQQAEPSIIA ATGSGTIPAS ALASAAAAAV SNHHHHHHLQ GGSLTAGLMI SHELVDSGGG 180 SSSGRPNWGD GGGSRSSLPT GLWPNVAGFG AGVQTTGLVS DGAGYRIGFP AFDYPAGAMS 240 FASILGGGGN NNQMPGLELG LAQEGNVGVL NPQSFAQMYQ QQMGQAQAQA QAQGQGRVLH 300 HTLQHNPSHE EHQQESGGEK DDSQGSGR

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	Rsa1.0_00300.1_g00010.1

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_018484562.1	0.0	PREDICTED: transcription factor TCP20-like isoform X2
Swissprot	Q9LSD5	1e-133	TCP20_ARATH; Transcription factor TCP20
TrEMBL	A0A291I319	1e-164	A0A291I319_BRARR; TCP20a
STRING	Bra025244.1-P	1e-160	(Brassica rapa)
STRING	Bo7g084120.1	1e-160	(Brassica oleracea)

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-123	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]