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

PGSC0003DMP400005966

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 190aa MW: 20782.9 Da PI: 10.3397

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400005966	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	38.4	2.9e-12	5	56	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47 +++WT eE+ l+ +v+++G g W+tI + R+ ++k++w+++ PGSC0003DMP400005966 5 KQKWTSEEEAALKAGVAKYGVGKWSTILKDPEfaavlRSRSNVDLKDKWRNL 56 79************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	13.427	1	61	IPR017930	Myb domain
SuperFamily	SSF46689	7.9E-17	2	58	IPR009057	Homeodomain-like
SMART	SM00717	2.9E-8	4	59	IPR001005	SANT/Myb domain
Pfam	PF00249	1.2E-8	5	56	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	5.4E-15	5	56	IPR009057	Homeodomain-like
CDD	cd11660	9.60E-21	6	56	No hit	No description
SMART	SM00526	1.1E-11	117	184	IPR005818	Linker histone H1/H5, domain H15
PROSITE profile	PS51504	16.972	118	189	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	2.83E-11	119	181	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	1.2E-12	124	181	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF00538	1.7E-10	126	185	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:0000786	Cellular Component	nucleosome
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 190 aa Download sequence Send to blast
MGAPKQKWTS EEEAALKAGV AKYGVGKWST ILKDPEFAAV LRSRSNVDLK DKWRNLHVMA 60 SGWGSRHRGK IVSKSVQPTP KHDDNTLVGY VGENDIEILD VKPLASTGTG DVLKDVGSKK 120 PFSRLDDLIL ESIAKLKESR GSSRNAISSY IEERYVAPLN FERLLAANLK VLTEKGRLIK 180 VINVGTGIK*

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	PGSC0003DMP400005966

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	BT014455	0.0	BT014455.1 Lycopersicon esculentum clone 133802R, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006364407.1	1e-130	PREDICTED: single myb histone 6-like
Refseq	XP_006364408.1	1e-130	PREDICTED: single myb histone 6-like
Refseq	XP_006364409.1	1e-130	PREDICTED: single myb histone 6-like
Swissprot	Q8VWK4	8e-56	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	M0ZUT4	1e-133	M0ZUT4_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400008599	1e-134	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA5122	22	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	3e-58	telomere repeat binding factor 1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400005966

Publications ? help Back to Top
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] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]