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

Thecc1EG041291t2

Common Name

TCM_041291

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

E2F/DP

Protein Properties

Length: 498aa MW: 55812.9 Da PI: 5.7234

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG041291t2	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	86.8	1.6e-27	146	211	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++e+gi++ln++a++L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Thecc1EG041291t2 146 RYDSSLGLLTKKFINLIKQAEDGILDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 211 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	2.0E-29	142	213	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	8.0E-35	146	211	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	2.9E-17	146	209	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	1.1E-24	148	211	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	9.93E-50	222	328	No hit	No description
SuperFamily	SSF144074	2.07E-34	223	328	No hit	No description
Pfam	PF16421	2.1E-34	227	326	IPR032198	E2F transcription factor, CC-MB domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008284	Biological Process	positive regulation of cell proliferation
GO:0009733	Biological Process	response to auxin
GO:0010090	Biological Process	trichome morphogenesis
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051302	Biological Process	regulation of cell division
GO:0051446	Biological Process	positive regulation of meiotic cell cycle
GO:0005634	Cellular Component	nucleus
GO:0005667	Cellular Component	transcription factor complex
GO:0005737	Cellular Component	cytoplasm
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: 498 aa Download sequence Send to blast
MSGSQASEQL KQSMQQQQQQ LQNQQQLKRQ LPFSMKPPFM APGGDYHRFP STEPRRIADQ 60 DAEAIVVKSP LKRKSDIADR EVESSEWTMP PGYTEVVSSP LQTPVSGKGG KAKTSRLTKS 120 SKAGPQTPAS NLGSPGNNLT PSGPCRYDSS LGLLTKKFIN LIKQAEDGIL DLNKAADTLE 180 VQKRRIYDIT NVLEGIGLIE KKLKNRIQWK GLDVSRPGEV DENVATLQAE VENLSIEERR 240 LDEQIREMQE RLRDLSEDEN NQKWLFVTEE DIKNLPCFQN ETLIAIKAPH GTTLEVPDPD 300 EAVDYPQRRY RIVLRSSMGP IDVYLVSQFE EKFEEIQGVD PPLNFPSTSG LNENPGTTMV 360 TEESRGKEIE PQGQDTNRMC SDLNASQDFV SGIMKIVPSD VDVMMLIIGF YQILALASLT 420 CGGLNLRLDG MSLVHFMMRI MAWVLLAHHV HKRLHQMQMK CHLLIKLGGE GHICVCGSDE 480 PFACILVRAF LMLWRLV*

Sequence ? help Back to Top

Protein Sequence Length: 498 aa Download sequence Send to blast

MSGSQASEQL KQSMQQQQQQ LQNQQQLKRQ LPFSMKPPFM APGGDYHRFP STEPRRIADQ  60
DAEAIVVKSP LKRKSDIADR EVESSEWTMP PGYTEVVSSP LQTPVSGKGG KAKTSRLTKS  120
SKAGPQTPAS NLGSPGNNLT PSGPCRYDSS LGLLTKKFIN LIKQAEDGIL DLNKAADTLE  180
VQKRRIYDIT NVLEGIGLIE KKLKNRIQWK GLDVSRPGEV DENVATLQAE VENLSIEERR  240
LDEQIREMQE RLRDLSEDEN NQKWLFVTEE DIKNLPCFQN ETLIAIKAPH GTTLEVPDPD  300
EAVDYPQRRY RIVLRSSMGP IDVYLVSQFE EKFEEIQGVD PPLNFPSTSG LNENPGTTMV  360
TEESRGKEIE PQGQDTNRMC SDLNASQDFV SGIMKIVPSD VDVMMLIIGF YQILALASLT  420
CGGLNLRLDG MSLVHFMMRI MAWVLLAHHV HKRLHQMQMK CHLLIKLGGE GHICVCGSDE  480
PFACILVRAF LMLWRLV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	6e-27	141	212	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	AY179506	1e-145	AY179506.1 Populus alba E2F mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007015716.2	0.0	PREDICTED: transcription factor E2FB isoform X2
Swissprot	Q9FV71	1e-159	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A061GV13	0.0	A0A061GV13_THECC; Transcription factor E2F isoform 2
STRING	EOY33336	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM808	28	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.3	1e-161	E2F transcription factor 1

Link Out ? help Back to Top
Phytozome	Thecc1EG041291t2
Entrez Gene	18590241

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] Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] Kobayashi K, et al. Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 2015. 34(15): p. 1992-2007 [PMID:26069325]