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

NNU_006605-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

E2F/DP

Protein Properties

Length: 489aa MW: 55687.9 Da PI: 5.508

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_006605-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	85.7	3.6e-27	169	234	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++++g+++ln+ a+ L +v ++RRiYDi+NVLe+++liek++kn+irwkg NNU_006605-RA 169 RYDSSLGLLTKKFISLIQEAKDGTLDLNNTADVL---EV--QKRRIYDITNVLEGIGLIEKTSKNNIRWKG 234 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	3.4E-29	165	236	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	3.13E-17	169	232	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	3.4E-35	169	234	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	5.8E-25	171	234	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	2.00E-39	245	352	No hit	No description
SuperFamily	SSF144074	6.8E-28	246	351	No hit	No description
Pfam	PF16421	3.5E-26	250	349	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: 489 aa Download sequence Send to blast
MSVSGQGSSR PHQQPQYQFQ LHSQSQSQIQ ASSYQILGPM KRHFPFSSTR LSSFSFAPSP 60 QSYEHRLSPD LSRNSQSGHT GAGYGEPTFC RTSLKQTKEM GHIEAQSGKW ATHQGYSEAD 120 NSPLTPIRAT GGKRISKQKM SKHRKYGPQT PGSNTENPAN TLTPSSSCRY DSSLGLLTKK 180 FISLIQEAKD GTLDLNNTAD VLEVQKRRIY DITNVLEGIG LIEKTSKNNI RWKGLDMSRP 240 TELDDQVARL KAEVESLYDE ECRLDNRIRE RQASLRAMDE DEKNRKFLFL TEEDIMNLPC 300 FQNHTLVAIK APQASSLEVP DPDEDADYPQ RQFRIIVRST TGPIDLYLLS KYEGQCEDIN 360 VRWTKLPDTY TRKINHNREA DLLQKIQDTT LSESGQNQDN QRISSSSLSL PGIQKIVPSD 420 FNIDDDYWFH SDLEVSITDL WGNEEWAEVD EFLKDEFVMS DNALEQPQML PGAFQKHREI 480 EMDHITEKT

Sequence ? help Back to Top

Protein Sequence Length: 489 aa Download sequence Send to blast

MSVSGQGSSR PHQQPQYQFQ LHSQSQSQIQ ASSYQILGPM KRHFPFSSTR LSSFSFAPSP  60
QSYEHRLSPD LSRNSQSGHT GAGYGEPTFC RTSLKQTKEM GHIEAQSGKW ATHQGYSEAD  120
NSPLTPIRAT GGKRISKQKM SKHRKYGPQT PGSNTENPAN TLTPSSSCRY DSSLGLLTKK  180
FISLIQEAKD GTLDLNNTAD VLEVQKRRIY DITNVLEGIG LIEKTSKNNI RWKGLDMSRP  240
TELDDQVARL KAEVESLYDE ECRLDNRIRE RQASLRAMDE DEKNRKFLFL TEEDIMNLPC  300
FQNHTLVAIK APQASSLEVP DPDEDADYPQ RQFRIIVRST TGPIDLYLLS KYEGQCEDIN  360
VRWTKLPDTY TRKINHNREA DLLQKIQDTT LSESGQNQDN QRISSSSLSL PGIQKIVPSD  420
FNIDDDYWFH SDLEVSITDL WGNEEWAEVD EFLKDEFVMS DNALEQPQML PGAFQKHREI  480
EMDHITEKT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	2e-25	164	235	2	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

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_010255152.1	0.0	PREDICTED: transcription factor E2FC-like
Swissprot	Q9FV71	1e-108	E2FB_ARATH; Transcription factor E2FB
TrEMBL	A0A1U7ZP82	0.0	A0A1U7ZP82_NELNU; transcription factor E2FC-like
STRING	XP_010255152.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.3	1e-112	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]