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

Potri.009G087000.3

Common Name

POPTR_0009s09020g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

MYB_related

Protein Properties

Length: 297aa MW: 32662.5 Da PI: 10.1364

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.009G087000.3	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	36.5	1.2e-11	5	55	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 +++WT+eE+ l+ +v ++G g W+tI + R+ ++k++w++ Potri.009G087000.3 5 KQKWTAEEEAALKAGVIKHGAGKWRTILKDPEfsgvlYLRSNVDLKDKWRN 55 79*********************************88*********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	11.771	1	61	IPR017930	Myb domain
SuperFamily	SSF46689	4.56E-15	2	59	IPR009057	Homeodomain-like
SMART	SM00717	6.6E-7	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	3.6E-13	4	56	IPR009057	Homeodomain-like
Pfam	PF00249	4.6E-8	5	55	IPR001005	SANT/Myb domain
CDD	cd11660	3.27E-18	6	56	No hit	No description
SuperFamily	SSF46785	1.63E-17	116	195	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM00526	2.7E-16	117	182	IPR005818	Linker histone H1/H5, domain H15
Gene3D	G3DSA:1.10.10.10	1.6E-16	118	189	IPR011991	Winged helix-turn-helix DNA-binding domain
PROSITE profile	PS51504	24.993	119	187	IPR005818	Linker histone H1/H5, domain H15
Pfam	PF00538	3.1E-9	124	180	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:0006357	Biological Process	regulation of transcription from RNA polymerase II promoter
GO:0009651	Biological Process	response to salt stress
GO:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0009737	Biological Process	response to abscisic acid
GO:0009739	Biological Process	response to gibberellin
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0031627	Biological Process	telomeric loop formation
GO:0046686	Biological Process	response to cadmium ion
GO:0000784	Cellular Component	nuclear chromosome, telomeric region
GO:0000786	Cellular Component	nucleosome
GO:0005730	Cellular Component	nucleolus
GO:0003691	Molecular Function	double-stranded telomeric DNA binding
GO:0033613	Molecular Function	activating transcription factor binding
GO:0042803	Molecular Function	protein homodimerization activity
GO:0070491	Molecular Function	repressing transcription factor binding
GO:1990841	Molecular Function	promoter-specific chromatin binding

Sequence ? help Back to Top
Protein Sequence Length: 297 aa Download sequence Send to blast
MGAPKQKWTA EEEAALKAGV IKHGAGKWRT ILKDPEFSGV LYLRSNVDLK DKWRNMSVMV 60 NGYGSREKPK LAPKRVHHVH RQDENLMSVG TVQSDEDIPD AKALPVSSAA LPVVNPKRTT 120 VRLDNLIMEA ITSLKEPGGS HKTAIASYIE EQYWPPNDFK RILSAKLKYL AANGKLIKVK 180 RKYRIAPTSA FAERRVSPLF FEGRQRISPK IERDDFNILT MSQIDLDLGK MRTMTAEQAA 240 EVAARAVAEA EAAIAVAEEA AREAETAEAD AEAAQAFAEA AMKTLKGRTA PKTVRA*

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

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00607	ChIP-seq	Transfer from AT1G49950	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.009G087000.3

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	GU277754	1e-146	GU277754.1 Populus balsamifera isolate FBK13 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277755	1e-146	GU277755.1 Populus balsamifera isolate FBK13 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277756	1e-146	GU277756.1 Populus balsamifera isolate FRE01 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277757	1e-146	GU277757.1 Populus balsamifera isolate FRE01 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277758	1e-146	GU277758.1 Populus balsamifera isolate GAL12 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277759	1e-146	GU277759.1 Populus balsamifera isolate GAL12 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277760	1e-146	GU277760.1 Populus balsamifera isolate HAY07 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277761	1e-146	GU277761.1 Populus balsamifera isolate HAY07 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277762	1e-146	GU277762.1 Populus balsamifera isolate INU03 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277763	1e-146	GU277763.1 Populus balsamifera isolate INU03 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277764	1e-146	GU277764.1 Populus balsamifera isolate KUU07 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277765	1e-146	GU277765.1 Populus balsamifera isolate KUU07 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277766	1e-146	GU277766.1 Populus balsamifera isolate MGR10 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277767	1e-146	GU277767.1 Populus balsamifera isolate MGR10 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277768	1e-146	GU277768.1 Populus balsamifera isolate NWL07 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277769	1e-146	GU277769.1 Populus balsamifera isolate NWL07 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277770	1e-146	GU277770.1 Populus balsamifera isolate STO11 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277771	1e-146	GU277771.1 Populus balsamifera isolate STO11 haplotype B putative DNA-binding protein gene, partial sequence.
GenBank	GU277772	1e-146	GU277772.1 Populus balsamifera isolate WHR03 haplotype A putative DNA-binding protein gene, partial sequence.
GenBank	GU277773	1e-146	GU277773.1 Populus balsamifera isolate WHR03 haplotype B putative DNA-binding protein gene, partial sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002313916.2	0.0	telomere repeat-binding factor 1 isoform X4
Swissprot	Q8VWK4	1e-93	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A2K1Z526	0.0	A0A2K1Z526_POPTR; Uncharacterized protein
STRING	POPTR_0009s09020.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	2e-94	telomere repeat binding factor 1

Link Out ? help Back to Top
Phytozome	Potri.009G087000.3
Entrez Gene	7469640

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] 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]