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

Gorai.013G257100.2

Common Name

B456_013G257100, LOC105782248

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

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

Family

E2F/DP

Protein Properties

Length: 460aa MW: 50885 Da PI: 4.5937

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.013G257100.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	85.3	4.7e-27	140	205	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++e+gi++ln++a +L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Gorai.013G257100.2 140 RYDSSLGLLTKKFINLIKQAEDGILDLNKAAGTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 205 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	1.6E-28	138	207	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	7.9E-34	140	205	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	1.22E-16	140	203	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	4.5E-24	142	205	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	3.22E-38	216	322	No hit	No description
SuperFamily	SSF144074	1.33E-31	217	321	No hit	No description
Pfam	PF16421	5.6E-33	221	320	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: 460 aa Download sequence Send to blast
MSGSQAADQL LKQSLQQQQQ QNQQSLNRQL LFSMAPGDDF HRFALAEPRS IADQEAEAMV 60 VKSPLKRKSD VADREVESGE WTLPRGYNEV SSGLPQTPVS GKGGKAQKTS RLAKSSKFGP 120 QTPSNLGSPG NNLTPAGPCR YDSSLGLLTK KFINLIKQAE DGILDLNKAA GTLEVQKRRI 180 YDITNVLEGI GLIEKKLKNR IQWKGLDVLR PGEVDENVAT LQAEVENLHN QEHRLDTQIR 240 NMQERLRDLS EDENNKKWLF VTEEDIKSLP CFQNEMLIAI KAPHGTTLDV PDPDEDDDSL 300 QRRYRIVLRS SIGPIDVYLV SQIEEKFEEI QGVGLPSNLP CTSGLDENPA ARMVTEESRD 360 VETQGQYING MCLDHHVSQD FVSGIMKIVP SDLDNDADYW LLSDPSVSIT DIWRTESGIE 420 LNNVDTLQYT GMAAGSTTQP QTPPLNAAEV LPPGNSIGR*

Sequence ? help Back to Top

Protein Sequence Length: 460 aa Download sequence Send to blast

MSGSQAADQL LKQSLQQQQQ QNQQSLNRQL LFSMAPGDDF HRFALAEPRS IADQEAEAMV  60
VKSPLKRKSD VADREVESGE WTLPRGYNEV SSGLPQTPVS GKGGKAQKTS RLAKSSKFGP  120
QTPSNLGSPG NNLTPAGPCR YDSSLGLLTK KFINLIKQAE DGILDLNKAA GTLEVQKRRI  180
YDITNVLEGI GLIEKKLKNR IQWKGLDVLR PGEVDENVAT LQAEVENLHN QEHRLDTQIR  240
NMQERLRDLS EDENNKKWLF VTEEDIKSLP CFQNEMLIAI KAPHGTTLDV PDPDEDDDSL  300
QRRYRIVLRS SIGPIDVYLV SQIEEKFEEI QGVGLPSNLP CTSGLDENPA ARMVTEESRD  360
VETQGQYING MCLDHHVSQD FVSGIMKIVP SDLDNDADYW LLSDPSVSIT DIWRTESGIE  420
LNNVDTLQYT GMAAGSTTQP QTPPLNAAEV LPPGNSIGR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	7e-26	135	206	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}.

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_012462325.1	0.0	PREDICTED: transcription factor E2FB-like isoform X8
Swissprot	Q9FV71	1e-156	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A0D2VIN2	0.0	A0A0D2VIN2_GOSRA; Uncharacterized protein
STRING	Gorai.013G257100.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.2	1e-153	E2F transcription factor 1

Link Out ? help Back to Top
Phytozome	Gorai.013G257100.2
Entrez Gene	105782248

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] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]