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

SMil_00004720-RA_Salv

Organism

Salvia miltiorrhiza

Taxonomic ID

226208

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia

Family

E2F/DP

Protein Properties

Length: 395aa MW: 44521.1 Da PI: 4.3851

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
SMil_00004720-RA_Salv	genome	NDCTCM	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	80.9	1.1e-25	72	137	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL llt+kf++l+++se gi++ln++a++L +v ++RRiYDi+NVLe+++liek+ kn i+wkg SMil_00004720-RA_Salv 72 RYDSSLALLTKKFINLIKHSEGGILELNKAAETL---EV--QKRRIYDITNVLEGIGLIEKTLKNIIQWKG 137 6899****************************...99..**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.10	1.7E-27	70	138	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	7.75E-17	72	135	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	8.8E-33	72	137	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	8.8E-23	74	137	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	8.96E-43	150	254	No hit	No description
SuperFamily	SSF144074	3.4E-31	150	254	No hit	No description
Pfam	PF16421	6.4E-32	154	252	IPR032198	E2F transcription factor, CC-MB domain

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: 395 aa Download sequence Send to blast
MADYGTISVE QNVSPATSAF MNSPHRTPVS VKSEKPQKVP KSTKANRVSC QSLMTNTGSP 60 TGDNLTPVGS CRYDSSLALL TKKFINLIKH SEGGILELNK AAETLEVQKR RIYDITNVLE 120 GIGLIEKTLK NIIQWKGTDV RRPGEVDETL PDIQEEIQNL NSEECRLDER IREMQEKLRG 180 LSEEEDNQRW LFITEEDVKN LPCFENETLI AIKAPHGTTL EVPEPDEAGD YPQRRYKIVL 240 RSTMGPIDVY LVSQFEEINA YEAQPSNLDT SVANETPKEE ITRDEIIAQG EGVQRMCLET 300 SSSHDFVSGI MKIVPDADSD ADYYLLSETD VSITDMWRTE DEVDWDTLNT LHEGYPVSII 360 SPSRDQAPRP KIRDCVQLLR MDGHCIVSSI IIMEI

Sequence ? help Back to Top

Protein Sequence Length: 395 aa Download sequence Send to blast

MADYGTISVE QNVSPATSAF MNSPHRTPVS VKSEKPQKVP KSTKANRVSC QSLMTNTGSP  60
TGDNLTPVGS CRYDSSLALL TKKFINLIKH SEGGILELNK AAETLEVQKR RIYDITNVLE  120
GIGLIEKTLK NIIQWKGTDV RRPGEVDETL PDIQEEIQNL NSEECRLDER IREMQEKLRG  180
LSEEEDNQRW LFITEEDVKN LPCFENETLI AIKAPHGTTL EVPEPDEAGD YPQRRYKIVL  240
RSTMGPIDVY LVSQFEEINA YEAQPSNLDT SVANETPKEE ITRDEIIAQG EGVQRMCLET  300
SSSHDFVSGI MKIVPDADSD ADYYLLSETD VSITDMWRTE DEVDWDTLNT LHEGYPVSII  360
SPSRDQAPRP KIRDCVQLLR MDGHCIVSSI IIMEI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	4e-20	67	137	2	73	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011090314.1	1e-177	transcription factor E2FB isoform X1
Refseq	XP_020552667.1	1e-178	transcription factor E2FB isoform X2
Swissprot	Q9FV71	1e-124	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A4D9A248	0.0	A0A4D9A248_SALSN; Uncharacterized protein
STRING	XP_004140164.1	1e-161	(Cucumis sativus)
STRING	Migut.N02463.1.p	1e-161	(Erythranthe guttata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1077	24	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.2	1e-127	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]