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

OMERI12G01820.3

Organism

Oryza meridionalis

Taxonomic ID

40149

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

E2F/DP

Protein Properties

Length: 381aa MW: 41328.6 Da PI: 4.6476

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI12G01820.3	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	83.6	1.6e-26	134	199	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kfl+ll+ ++ giv+ln++a++L +v ++RRiYDi+NVLe+++liekk kn+irwkg OMERI12G01820.3 134 RYDSSLGLLTKKFLNLLKGAPGGIVDLNNAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNNIRWKG 199 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	6.7E-28	132	200	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	1.36E-16	134	197	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	8.6E-35	134	199	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	1.3E-23	136	199	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	1.66E-38	210	299	No hit	No description
SuperFamily	SSF144074	5.23E-25	211	299	No hit	No description
Pfam	PF16421	4.0E-24	214	297	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:0005634	Cellular Component	nucleus
GO:0005667	Cellular Component	transcription factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 381 aa Download sequence Send to blast
MAAAGAGSSE VAARVLLQRY QPFAPPPGEY HQFGSGGGGA AAAAAGDMTE AVLIRTPLKR 60 KHDREENEAA ESNDWMMSPG YTNPAGSPVP TPLSGKGSKA FAKSKAAKGQ KSCPQTPLCA 120 SSPGNPVTPV GGCRYDSSLG LLTKKFLNLL KGAPGGIVDL NNAAETLEVQ KRRIYDITNV 180 LEGIGLIEKK LKNNIRWKGI DDSRPGEVSD DMSILQADIE ALSLQEHSVD QQIRWLYVTE 240 DDIKSLPCFQ NQTLIAIKAP HGTTLEVPDP DEVNDYPQRR YRIVLRSTMG PIDVYLVSQF 300 EEMSGMETPP RTVQPVSMDS LENPRTLLAA EPNKAADYLL PAEVEWEGIE KFNAEDFLEV 360 STPRQQDKPS SDIMDGDSCI S

Sequence ? help Back to Top

Protein Sequence Length: 381 aa Download sequence Send to blast

MAAAGAGSSE VAARVLLQRY QPFAPPPGEY HQFGSGGGGA AAAAAGDMTE AVLIRTPLKR  60
KHDREENEAA ESNDWMMSPG YTNPAGSPVP TPLSGKGSKA FAKSKAAKGQ KSCPQTPLCA  120
SSPGNPVTPV GGCRYDSSLG LLTKKFLNLL KGAPGGIVDL NNAAETLEVQ KRRIYDITNV  180
LEGIGLIEKK LKNNIRWKGI DDSRPGEVSD DMSILQADIE ALSLQEHSVD QQIRWLYVTE  240
DDIKSLPCFQ NQTLIAIKAP HGTTLEVPDP DEVNDYPQRR YRIVLRSTMG PIDVYLVSQF  300
EEMSGMETPP RTVQPVSMDS LENPRTLLAA EPNKAADYLL PAEVEWEGIE KFNAEDFLEV  360
STPRQQDKPS SDIMDGDSCI S

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	5e-23	123	200	2	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
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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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK059233	0.0	AK059233.1 Oryza sativa Japonica Group cDNA clone:001-024-E10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015620749.1	0.0	transcription factor E2FA
Swissprot	Q9FV71	6e-98	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A0E0F9M8	0.0	A0A0E0F9M8_9ORYZ; Uncharacterized protein
STRING	OMERI12G01800.3	0.0	(Oryza meridionalis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G36010.1	6e-83	E2F transcription factor 3

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]