PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

MYB_related

Protein Properties

Length: 301aa MW: 33280.1 Da PI: 10.2598

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc01g106940.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	38.7	2.3e-12	5	55	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 ++rWT++E+ l+ +v+++G+g W+tI + R+ ++k++w++ Solyc01g106940.2.1 5 KQRWTPDEEAALKAGVRKHGPGKWRTILKDPVfsgvlYSRSNVDLKDKWRN 55 79************************************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	13.243	1	63	IPR017930	Myb domain
SuperFamily	SSF46689	1.15E-15	2	59	IPR009057	Homeodomain-like
SMART	SM00717	5.7E-8	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.9E-14	5	56	IPR009057	Homeodomain-like
Pfam	PF00249	6.8E-9	5	55	IPR001005	SANT/Myb domain
CDD	cd11660	4.41E-19	6	56	No hit	No description
SMART	SM00526	1.2E-13	118	183	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	3.75E-15	118	196	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	3.3E-13	119	185	IPR011991	Winged helix-turn-helix DNA-binding domain
PROSITE profile	PS51504	21.829	120	188	IPR005818	Linker histone H1/H5, domain H15
Pfam	PF00538	6.9E-8	125	181	IPR005818	Linker histone H1/H5, domain H15

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006334	Biological Process	nucleosome assembly
GO:0031627	Biological Process	telomeric loop formation
GO:0000784	Cellular Component	nuclear chromosome, telomeric region
GO:0000786	Cellular Component	nucleosome
GO:0003691	Molecular Function	double-stranded telomeric DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 301 aa Download sequence Send to blast
MGAPKQRWTP DEEAALKAGV RKHGPGKWRT ILKDPVFSGV LYSRSNVDLK DKWRNMSVMA 60 NGCGSREKAR LALKRMNQAR KQDERSLSVS TEAISDEEMT EARLATTSSD SLQMRGSKRS 120 IIRLDNLIME AISNLKEPGG SNKTTIATYI EDQYWAPTNF KRLLSAKLKY LTATRRLVKM 180 KRKYIIAPTL VLSDRRRIPS VPLLESSQRI SSRVDPDDIN TLTKAQVDFE LTKMRSMTPQ 240 EAAVAAARAV AEAEVAIAEA EDAAREADAA EADAEAAQAF AEAAMKALEG RSIPRMMIHA 300 *

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.16940	0.0	fruit\| leaf

Functional Description ? help Back to Top
Source	Description
UniProt	Binds preferentially double-stranded telomeric repeats. {ECO:0000269\|PubMed:19102728}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc01g106940.2.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC233135	0.0	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-92h13 map 1, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004230688.1	0.0	telomere repeat-binding factor 1
Swissprot	Q8VWK4	2e-91	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A3Q7ES11	0.0	A0A3Q7ES11_SOLLC; Uncharacterized protein
STRING	Solyc01g106940.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2864	24	48
Representative plant	OGRP855	16	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	9e-91	telomere repeat binding factor 1

Link Out ? help Back to Top
Phytozome	Solyc01g106940.2.1
Entrez Gene	101263059

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] Alexandrov NN, et al. Features of Arabidopsis genes and genome discovered using full-length cDNAs. Plant Mol. Biol., 2006. 60(1): p. 69-85 [PMID:16463100] Schrumpfová PP, et al. Telomere repeat binding proteins are functional components of Arabidopsis telomeres and interact with telomerase. Plant J., 2014. 77(5): p. 770-81 [PMID:24397874] Liang SC, et al. Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2. PLoS Genet., 2015. 11(12): p. e1005660 [PMID:26642436] Fulcher N,Riha K Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana. Front Genet, 2015. 6: p. 349 [PMID:26779251] Kotliński M, et al. Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain. Plant Physiol., 2017. 174(1): p. 27-34 [PMID:28298478]