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

AHYPO_022833-RA

Organism

Amaranthus hypochondriacus

Taxonomic ID

28502

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus

Family

E2F/DP

Protein Properties

Length: 470aa MW: 52109 Da PI: 4.4655

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AHYPO_022833-RA	genome	BYU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	87.7	8.3e-28	152	217	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++e+gi++ln++a++L dv ++RRiYDi+NVLe+++liekk kn+i+wkg AHYPO_022833-RA 152 RYDSSLGLLTKKFINLIKQAEDGILDLNKAADTL---DV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 217 6899****************************.....****************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.10	4.2E-29	150	219	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	3.26E-17	152	215	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	1.0E-34	152	217	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	1.4E-24	154	217	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	1.17E-46	228	342	No hit	No description
SuperFamily	SSF144074	5.23E-34	230	342	No hit	No description
Pfam	PF16421	2.8E-33	233	340	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: 470 aa Download sequence Send to blast
IGMSTPKTTI PQSQQQPPPP PPHPPKRQLP FSSMRPPFVP PPGDYHRFSD NLRSLPPPPP 60 PPPSDHSEAI LVKTPTMKRK SDVAEFDGEP SDWTISPGYT EVVNSPLQTP VSGKNGKGRG 120 SRATKANRTG PQTPMSNAGS PGNNLTPVGS CRYDSSLGLL TKKFINLIKQ AEDGILDLNK 180 AADTLDVQKR RIYDITNVLE GIGLIEKKLK NRIQWKGLDV SRPGDVDESV TSLQADVENL 240 SMEERRLDEQ IREMQERLRE ISEDENNQKW LFVTEEDIKG LPCFQNETLI AIKAPHGTTL 300 EVPDPDEASG TRSPYAVDYP QRRYRIVLRS TMGPIDVYLV SQFEEKFEEI SGAEPPSNLP 360 STASYYEQTT AAADDESRGN EIEMQEQETQ RLYPDANSQD FVSGIMKIVP EVDSDADYWL 420 LSDGDVSITD MWRTDSGVEW NDLGTIHEEY GVENVGSLQP QSPPAAAQK*

Sequence ? help Back to Top

Protein Sequence Length: 470 aa Download sequence Send to blast

IGMSTPKTTI PQSQQQPPPP PPHPPKRQLP FSSMRPPFVP PPGDYHRFSD NLRSLPPPPP  60
PPPSDHSEAI LVKTPTMKRK SDVAEFDGEP SDWTISPGYT EVVNSPLQTP VSGKNGKGRG  120
SRATKANRTG PQTPMSNAGS PGNNLTPVGS CRYDSSLGLL TKKFINLIKQ AEDGILDLNK  180
AADTLDVQKR RIYDITNVLE GIGLIEKKLK NRIQWKGLDV SRPGDVDESV TSLQADVENL  240
SMEERRLDEQ IREMQERLRE ISEDENNQKW LFVTEEDIKG LPCFQNETLI AIKAPHGTTL  300
EVPDPDEASG TRSPYAVDYP QRRYRIVLRS TMGPIDVYLV SQFEEKFEEI SGAEPPSNLP  360
STASYYEQTT AAADDESRGN EIEMQEQETQ RLYPDANSQD FVSGIMKIVP EVDSDADYWL  420
LSDGDVSITD MWRTDSGVEW NDLGTIHEEY GVENVGSLQP QSPPAAAQK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	2e-25	152	218	7	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}.

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_021715678.1	0.0	transcription factor E2FB-like
Swissprot	Q9FV71	1e-159	E2FB_ARATH; Transcription factor E2FB
TrEMBL	Q9FNS0	0.0	Q9FNS0_OXYRB; Transcription factor (E2F)
STRING	XP_010685421.1	0.0	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.2	1e-161	E2F transcription factor 1

Link Out ? help Back to Top
Phytozome	AHYPO_022833-RA

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]