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

676759808

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

TCP

Protein Properties

Length: 314aa MW: 33055.3 Da PI: 8.0518

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676759808	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	56.8	8.9e-18	77	114	3	40
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLG 40 +k+++++++hTkv+gR+RR+R++a+caar+F+L++eL 676759808 77 PKRSSNKDRHTKVEGRGRRIRMPALCAARIFQLTRELA 114 6999********************************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.3E-13	81	114	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	12.67	82	136	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: 314 aa Download sequence Send to blast
MDPKNPNRHQ VPNFLNPPQP PRNQGLGDAS EDNKDDNHPH HLLHHRKPAE IKDFQIVVAS 60 SDKEANNSKK QQNQLGPKRS SNKDRHTKVE GRGRRIRMPA LCAARIFQLT RELATGSGTI 120 PASALASAAA VSNHHHQAAS LTAGLMISHD LDGGAGGSSS GRPNWGIGGG EGAGGASRSN 180 LPTGLWPNVA GFGAGVQTTG LMSDGAGYRI GFPGFDFPGV SNIGAMSFAS ILGGASGNNN 240 HMPGLELGLS QEGNVGVLNP QSFTQIYQQM GQAQAQAQAQ AHGRVLHHTL HHDPSHEDHQ 300 QESGEKDDSQ GSGR

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	676759808

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_024007565.1	1e-152	transcription factor TCP20
Swissprot	Q9LSD5	1e-128	TCP20_ARATH; Transcription factor TCP20
TrEMBL	V4KNB9	1e-148	V4KNB9_EUTSA; Uncharacterized protein
STRING	XP_006395493.1	1e-148	(Eutrema salsugineum)

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-111	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]