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

Sevir.5G474900.6.p

Organism

Setaria viridis

Taxonomic ID

4556

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

MYB_related

Protein Properties

Length: 608aa MW: 66201.3 Da PI: 9.8656

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.5G474900.6.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	23	1.9e-07	508	557	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRtlkqcksrwqky 47 r++++ E e lv+av+qlG+g+W+ + + +Rt ++k++w ++ Sevir.5G474900.6.p 508 RMPFSVGEVEALVEAVEQLGTGRWRDVKMHAFdgaDHRTYVDLKDKWKTL 557 7899999******************9999899***********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54236	1.85E-7	314	390	IPR029071	Ubiquitin-related domain
PROSITE profile	PS50053	9.286	320	390	IPR000626	Ubiquitin domain
PROSITE profile	PS51294	15.733	503	562	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	3.7E-9	504	559	IPR009057	Homeodomain-like
SMART	SM00717	6.4E-7	507	560	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	8.27E-15	510	590	IPR009057	Homeodomain-like
CDD	cd11660	1.69E-16	510	559	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0032204	Biological Process	regulation of telomere maintenance
GO:0042162	Molecular Function	telomeric DNA binding
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 608 aa Download sequence Send to blast
MVSQKRLGYG SRGRQIPAMP RVPNSVRGKR TTRRKKNEMC AFDLLASVAG TLLTDQDSSS 60 YVPNTSVAAT SYARNRKSVK EEYFDEILHL KNVAVKKDCG SGCVVGSGGV SALPRKARDS 120 SVRCTRPCEI SRGLGIICEY GAFGVFHPGS SSSAEAGQAH QAEPKVIRSK ADGHTAALDS 180 LFDSVDLDGR PPALVEMQHT ADRDDDENSS GCTHPSTTGN EGYKPHFLGN HRIRKLLASK 240 VRKAARNKTS GGMSSKGSKL NFCGKKIPTT RQKVQRTNFK RKKLARGTTP FAKGMLTGAT 300 GTSFRMQGQN KSCGSEDYHV KLRIKSFNIP ELFVEIPETA TIGSLKRTVM DVVTSIMEGG 360 LRVGVLLQGK SIQDDSKTLR QAGICHGEKL NNIDFTLECE RQQDSPSGVI IAEEMDFVSA 420 DIVEPLARMK YEEPFPGTKG GGGNQQPIKA YPNDSFAGCV HRPVEMASQD ASASLQAIIP 480 VAASDLNALA IVPICKTRRS EFGQRRTRMP FSVGEVEALV EAVEQLGTGR WRDVKMHAFD 540 GADHRTYVDL KDKWKTLVHT ASISPQQRRG EPVPQELLDR VLSAQAYWSQ QQAKLHGKAP 600 LPEICLA*

Sequence ? help Back to Top

Protein Sequence Length: 608 aa Download sequence Send to blast

MVSQKRLGYG SRGRQIPAMP RVPNSVRGKR TTRRKKNEMC AFDLLASVAG TLLTDQDSSS  60
YVPNTSVAAT SYARNRKSVK EEYFDEILHL KNVAVKKDCG SGCVVGSGGV SALPRKARDS  120
SVRCTRPCEI SRGLGIICEY GAFGVFHPGS SSSAEAGQAH QAEPKVIRSK ADGHTAALDS  180
LFDSVDLDGR PPALVEMQHT ADRDDDENSS GCTHPSTTGN EGYKPHFLGN HRIRKLLASK  240
VRKAARNKTS GGMSSKGSKL NFCGKKIPTT RQKVQRTNFK RKKLARGTTP FAKGMLTGAT  300
GTSFRMQGQN KSCGSEDYHV KLRIKSFNIP ELFVEIPETA TIGSLKRTVM DVVTSIMEGG  360
LRVGVLLQGK SIQDDSKTLR QAGICHGEKL NNIDFTLECE RQQDSPSGVI IAEEMDFVSA  420
DIVEPLARMK YEEPFPGTKG GGGNQQPIKA YPNDSFAGCV HRPVEMASQD ASASLQAIIP  480
VAASDLNALA IVPICKTRRS EFGQRRTRMP FSVGEVEALV EAVEQLGTGR WRDVKMHAFD  540
GADHRTYVDL KDKWKTLVHT ASISPQQRRG EPVPQELLDR VLSAQAYWSQ QQAKLHGKAP  600
LPEICLA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2juh_A	8e-55	496	596	5	105	Telomere binding protein TBP1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Binds the telomeric double-stranded 5'TTTAGGG-3' repeat and regulates telomere length and structure. {ECO:0000269\|PubMed:10811811, ECO:0000269\|PubMed:17586654}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.5G474900.6.p

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_022682808.1	0.0	telomere-binding protein 1 isoform X3
Swissprot	Q9LL45	0.0	TBP1_ORYSJ; Telomere-binding protein 1
TrEMBL	A0A368RGB3	0.0	A0A368RGB3_SETIT; Uncharacterized protein
STRING	Si000591m	0.0	(Setaria italica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G07540.1	4e-76	TRF-like 2

Link Out ? help Back to Top
Phytozome	Sevir.5G474900.6.p

Publications ? help Back to Top
Yu EY, et al. Sequence-specific DNA recognition by the Myb-like domain of plant telomeric protein RTBP1. J. Biol. Chem., 2000. 275(31): p. 24208-14 [PMID:10811811] Hong JP, et al. Suppression of RICE TELOMERE BINDING PROTEIN 1 results in severe and gradual developmental defects accompanied by genome instability in rice. Plant Cell, 2007. 19(6): p. 1770-81 [PMID:17586654] Ko S, et al. Solution structure of the DNA binding domain of rice telomere binding protein RTBP1. Biochemistry, 2009. 48(5): p. 827-38 [PMID:19152316] Mukherjee K,Pandey DM,Vidyarthi AS In silico characterization and analysis of RTBP1 and NgTRF1 protein through MD simulation and molecular docking - A comparative study. Interdiscip Sci, 2015. [PMID:25663113] Mukherjee K,Pandey DM,Vidyarthi AS In Silico Characterization and Analysis of RTBP1 and NgTRF1 Protein Through MD Simulation and Molecular Docking: A Comparative Study. Interdiscip Sci, 2015. 7(3): p. 275-86 [PMID:26289405]