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

Itr_sc000959.1_g00009.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

MYB_related

Protein Properties

Length: 305aa MW: 33476.4 Da PI: 8.2046

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000959.1_g00009.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	35.8	1.8e-11	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+++ Itr_sc000959.1_g00009.1 5 KQKWTSEEEAALKAGVSKYGVGKWSTILKDPEfaavlCTRSNVDLKDKWRNL 56 79********************************999*********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	12.249	1	61	IPR017930	Myb domain
SuperFamily	SSF46689	2.99E-16	2	62	IPR009057	Homeodomain-like
SMART	SM00717	4.1E-8	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	3.0E-14	5	56	IPR009057	Homeodomain-like
Pfam	PF00249	1.2E-8	5	56	IPR001005	SANT/Myb domain
CDD	cd11660	1.72E-21	6	56	No hit	No description
SuperFamily	SSF46785	4.57E-15	117	189	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM00526	2.1E-14	118	183	IPR005818	Linker histone H1/H5, domain H15
PROSITE profile	PS51504	23.978	120	188	IPR005818	Linker histone H1/H5, domain H15
Gene3D	G3DSA:1.10.10.10	1.9E-15	120	189	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF00538	2.0E-10	123	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:0000786	Cellular Component	nucleosome
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MGAPKQKWTS EEEAALKAGV SKYGVGKWST ILKDPEFAAV LCTRSNVDLK DKWRNLHVMA 60 NGWGSRQRGK IVYKGTQSTP KHEDNSMALI PVVENDMEVL DAKPLVSTCE TLQAVHPKKP 120 ISSLDDLILE AIVKLKEPRG SSRSSISLYI EEHYAAPPNL ERLLAANLKV LTENGRLVKV 180 KHQYRIPPSR VQLSINVKVE PSTFPLGGKQ MHYLKPEKNA TRILTKAQID AELEKMKNMT 240 AQEAAAAAAQ AVAEAEAAIA DAEQAAREAE EAEAEAEAAQ SLAEATSKAL IFQSSDYPRL 300 IKPIF

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019195168.1	0.0	PREDICTED: telomere repeat-binding factor 1-like
Refseq	XP_019195169.1	0.0	PREDICTED: telomere repeat-binding factor 1-like
Refseq	XP_019195170.1	0.0	PREDICTED: telomere repeat-binding factor 1-like
Refseq	XP_019195171.1	0.0	PREDICTED: telomere repeat-binding factor 1-like
Swissprot	Q8VWK4	8e-74	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A0V0IBG0	1e-111	A0A0V0IBG0_SOLCH; Putative telomere repeat-binding factor 1-like
STRING	Solyc02g064630.2.1	1e-109	(Solanum lycopersicum)

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-75	telomere repeat binding factor 1

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]