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

Gh_A13G1929

Organism

Gossypium hirsutum

Taxonomic ID

3635

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: 656aa MW: 74782.9 Da PI: 4.6492

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A13G1929	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	75.7	4.8e-24	96	160	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+ f++l++++e+g ++ln++a +L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Gh_A13G1929 96 RYDSSLGLLTK-FINLIKQAEDGSLDLNKAAGTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 160 6799**985.8*****************...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	4.1E-25	94	162	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	4.2E-31	96	160	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	4.5E-21	98	160	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	8.16E-14	98	158	IPR011991	Winged helix-turn-helix DNA-binding domain
CDD	cd14660	1.06E-27	171	243	No hit	No description
SuperFamily	SSF144074	6.02E-26	172	250	No hit	No description
Pfam	PF16421	9.4E-26	176	263	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: 656 aa Download sequence Send to blast
MKLQQKQEKT KAKTIKQEKT KAKIENISSR TLSKQNRASK RIKDPEKKKA FEQPPLEIRK 60 NLLQPTKQKS SKFGPQTPSS ALGSPSNNLT PAGPCRYDSS LGLLTKFINL IKQAEDGSLD 120 LNKAAGTLEV QKRRIYDITN VLEGIGLIEK KLKNRIQWKG LDVSRPGEVD ENVATLQAEV 180 ENLHNQEHRL DGQIRKTQER LRDLSEDENN SKWLFVTEED IKSLPCFQNE MLIAIKAPHG 240 TTLEVPDPDE DDDSLQRRYR IVLGIWMDFL IGLGICLLGL AFKNLGFCDS YHLPSTSGLD 300 ENPAASMVTE ESREVETQGQ YINGMCLDCH VSQDFVSWIM KIVPSDLDND ADYWLLSDPS 360 VSITDIWRTE SGIELSNFDI LQYTGMAAGS TTQPQTPPLN AAEVPPPGNS TGSIGYYVNT 420 FNYFSRPKNC MAVDHHKLIN NMPRSGHFDP TSLKRMISAK TPIVSPVYPI LNRDKSVIPS 480 IYEFRSLLSF HAYLTLDEAE NLSGSILSQR RQNKEKWRYN EDFEPEPESD IKDLEEEDLS 540 DFEPEPESDI KDLEEEDLSE DDLLDDYGSS CRYEGYDGFD ASGKRWYEVS LVDDKNQDYH 600 KALLLDVLKW DSCKSIYWYK ANHLFEARMS EEEADKVAGL EEVEYVEPRR YIMELN

Sequence ? help Back to Top

Protein Sequence Length: 656 aa Download sequence Send to blast

MKLQQKQEKT KAKTIKQEKT KAKIENISSR TLSKQNRASK RIKDPEKKKA FEQPPLEIRK  60
NLLQPTKQKS SKFGPQTPSS ALGSPSNNLT PAGPCRYDSS LGLLTKFINL IKQAEDGSLD  120
LNKAAGTLEV QKRRIYDITN VLEGIGLIEK KLKNRIQWKG LDVSRPGEVD ENVATLQAEV  180
ENLHNQEHRL DGQIRKTQER LRDLSEDENN SKWLFVTEED IKSLPCFQNE MLIAIKAPHG  240
TTLEVPDPDE DDDSLQRRYR IVLGIWMDFL IGLGICLLGL AFKNLGFCDS YHLPSTSGLD  300
ENPAASMVTE ESREVETQGQ YINGMCLDCH VSQDFVSWIM KIVPSDLDND ADYWLLSDPS  360
VSITDIWRTE SGIELSNFDI LQYTGMAAGS TTQPQTPPLN AAEVPPPGNS TGSIGYYVNT  420
FNYFSRPKNC MAVDHHKLIN NMPRSGHFDP TSLKRMISAK TPIVSPVYPI LNRDKSVIPS  480
IYEFRSLLSF HAYLTLDEAE NLSGSILSQR RQNKEKWRYN EDFEPEPESD IKDLEEEDLS  540
DFEPEPESDI KDLEEEDLSE DDLLDDYGSS CRYEGYDGFD ASGKRWYEVS LVDDKNQDYH  600
KALLLDVLKW DSCKSIYWYK ANHLFEARMS EEEADKVAGL EEVEYVEPRR YIMELN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	2e-23	91	161	2	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.22603	1e-101	boll

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016729709.1	0.0	PREDICTED: transcription factor E2FB-like
Swissprot	Q9FV71	1e-107	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A1U8MVV2	0.0	A0A1U8MVV2_GOSHI; transcription factor E2FB-like
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-110	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]