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

Lj3g3v2949670.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

E2F/DP

Protein Properties

Length: 325aa MW: 36310 Da PI: 5.3677

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj3g3v2949670.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	87	1.4e-27	136	201	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++e+g+++ln++a++L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Lj3g3v2949670.1 136 RYDSSLGLLTKKFINLIKQAEDGMLDLNKAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 201 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	7.2E-30	133	203	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	2.4E-34	136	201	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	1.72E-17	136	199	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	8.3E-25	138	201	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	1.16E-47	212	318	No hit	No description
SuperFamily	SSF144074	4.18E-33	215	318	No hit	No description
Pfam	PF16421	8.4E-34	217	316	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: 325 aa Download sequence Send to blast
MSGKRPPPAA ADPPDQIMHS MKRQLPFVAA ASGDYHRFTP DRRRNPDQVA EAIVVKTPQL 60 KRKNEAADFE ADSGDRMNPG STETAISPFQ TPLSGKMGKG GKSSRLTKCI KSATQTPGPN 120 IGSPSANNLT PAGSCRYDSS LGLLTKKFIN LIKQAEDGML DLNKAAETLE VQKRRIYDIT 180 NVLEGIGLIE KKLKNRIQWK GLDVSRPGQG DDSFGSLQTE VENLTIEERQ LDEQIREMQE 240 RLRDLSEDEN NEKLLFVTEE DIKKLPGFQN ETLIAIKAPH GTTLEVPDPD EAVDYPQRRY 300 RIVLRSTMGP IDVYLVSQFE EKFEE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	8e-26	131	202	2	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant at the G1/S transition. Lower but constant level in the following phases. {ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543, ECO:0000269\|PubMed:16514015}.
Uniprot	TISSUE SPECIFICITY: Expressed in proliferating cells and several differentiated tissues. Detected in inflorescence and shoot apical meristems, cotyledonary vascular tissues, leaf primordia, young leaves, base of trichomes, central cylinder and elongation zone of roots, lateral root primordia, flowers, pistils of immature flowers and pollen grains. {ECO:0000269\|PubMed:16514015}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj3g3v2949670.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT052455	0.0	BT052455.1 Medicago truncatula clone MTYFD_FE_FF_FG1G-O-10 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004506214.1	0.0	transcription factor E2FB isoform X1
Swissprot	Q9FV71	1e-126	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A371IC06	0.0	A0A371IC06_MUCPR; Transcription factor E2FB (Fragment)
STRING	XP_004506213.1	0.0	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1947	34	90

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.3	1e-123	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]