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

Dca42768.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

E2F/DP

Protein Properties

Length: 403aa MW: 44902.7 Da PI: 6.1452

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca42768.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	76.3	3.1e-24	111	170	7	71
E2F_TDP 7 rlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 +llt+kf++ll+++e+gi++ln++a++L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Dca42768.1 111 GLLTKKFVNLLKHAEDGILDLNNAADTL---EV--RKRRIYDITNVLEGIGLIEKKLKNRIHWKG 170 79************************...99..9*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01372	6.0E-28	105	170	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	6.5E-25	109	172	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	5.85E-15	110	171	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	9.2E-22	111	170	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF144074	2.56E-11	202	265	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005667	Cellular Component	transcription factor complex
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 403 aa Download sequence Send to blast
MSTKKQQQMS ALSSMRPPFV PPPGDYHRFS AAVFPPPSDA DAFVVKTPPL KRKSDGGDYK 60 AESSDWTPSP GYRVGHSPLQ TPVSGKPGRG RGSSVAKFNK AGSQTPVSNV GLLTKKFVNL 120 LKHAEDGILD LNNAADTLEV RKRRIYDITN VLEGIGLIEK KLKNRIHWKG LDVSRPGEVD 180 DSMTSLQIHF LSTKLIRNHF FLLQADADHL SMEERKLDEQ IRWLFVTEED IKGLPCFQAA 240 DIPQRRYRIV LRSTMGPIDV YLVSQFEEKF EEISGTPEPP PSLPSSSGYN EFTPVAVKTE 300 NRCMEMEIQG HGSHLRYLDS NSQQDFAGGI MKIVPEVDID ADYWLLSDAE VSLTDMWRTD 360 SGVEWNELGT IHEHYAMANV STSQPQSPPP PNATDVPRVI SGS

Sequence ? help Back to Top

Protein Sequence Length: 403 aa Download sequence Send to blast

MSTKKQQQMS ALSSMRPPFV PPPGDYHRFS AAVFPPPSDA DAFVVKTPPL KRKSDGGDYK  60
AESSDWTPSP GYRVGHSPLQ TPVSGKPGRG RGSSVAKFNK AGSQTPVSNV GLLTKKFVNL  120
LKHAEDGILD LNNAADTLEV RKRRIYDITN VLEGIGLIEK KLKNRIHWKG LDVSRPGEVD  180
DSMTSLQIHF LSTKLIRNHF FLLQADADHL SMEERKLDEQ IRWLFVTEED IKGLPCFQAA  240
DIPQRRYRIV LRSTMGPIDV YLVSQFEEKF EEISGTPEPP PSLPSSSGYN EFTPVAVKTE  300
NRCMEMEIQG HGSHLRYLDS NSQQDFAGGI MKIVPEVDID ADYWLLSDAE VSLTDMWRTD  360
SGVEWNELGT IHEHYAMANV STSQPQSPPP PNATDVPRVI SGS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	5e-23	109	171	11	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	140	162	RKRRIYDITNVLEGIGLIEKKLK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC-3' found in the promoter region of a number of genes whose products are involved in cell cycle regulation or in DNA replication. The binding of retinoblastoma-related proteins represses transactivation. Involved in the control of cell-cycle progression from G1 to S phase and from G2 to M phase. Stimulates cell proliferation and delays differentiation. Represses cell enlargement and endoreduplication in auxin-free conditions. {ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543, ECO:0000269\|PubMed:11862494, ECO:0000269\|PubMed:11891240, ECO:0000269\|PubMed:12913157, ECO:0000269\|PubMed:16055635, ECO:0000269\|PubMed:16514015}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by light and by auxin. May be up-regulated by E2FA. {ECO:0000269\|PubMed:16055635, ECO:0000269\|PubMed:16514015, ECO:0000269\|PubMed:18424613}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021720546.1	1e-180	transcription factor E2FB-like
Swissprot	Q9FV71	1e-98	E2FB_ARATH; Transcription factor E2FB
TrEMBL	Q9FNS0	1e-179	Q9FNS0_OXYRB; Transcription factor (E2F)
STRING	XP_010685421.1	1e-179	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.2	8e-92	E2F transcription factor 1

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Wu M,Liu L,Hijazi H,Chan C A multi-layer inference approach to reconstruct condition-specific genes and their regulation. Bioinformatics, 2013. 29(12): p. 1541-52 [PMID:23610368] Kobayashi K, et al. Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 2015. 34(15): p. 1992-2007 [PMID:26069325]