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

Rsa1.0_00289.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

MYB_related

Protein Properties

Length: 292aa MW: 31785.9 Da PI: 8.9654

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00289.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	32.5	2e-10	7	55	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 +W++eE+ l a+ ++G+g W+tI + R+ ++k++w++ Rsa1.0_00289.1_g00005.1 7 KWSQEEESALRSAIVKHGPGKWRTILKDPDfsrvlYLRSNVDLKDKWRN 55 8********************************88********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	10.411	1	61	IPR017930	Myb domain
SuperFamily	SSF46689	9.36E-14	2	58	IPR009057	Homeodomain-like
SMART	SM00717	3.5E-5	4	59	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	3.8E-12	4	56	IPR009057	Homeodomain-like
Pfam	PF00249	3.3E-7	6	55	IPR001005	SANT/Myb domain
CDD	cd11660	1.11E-15	6	56	No hit	No description
SMART	SM00526	8.4E-7	106	176	IPR005818	Linker histone H1/H5, domain H15
PROSITE profile	PS51504	19.807	111	181	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	3.54E-9	113	190	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	2.0E-10	117	182	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF00538	8.3E-7	118	167	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: 292 aa Download sequence Send to blast
MGAPKHKWSQ EEESALRSAI VKHGPGKWRT ILKDPDFSRV LYLRSNVDLK DKWRNISVMG 60 YGSGSGSRSK SSVAVKKTHG SLPSDEEILK MVDSKNFSTT GSSALQVPSP RTPNWLDSLI 120 NEAISNMKEG GSSKTAIGNY IQERYEVPPN FKTLLSSKLK YLSACGTGKL IKVKRKYSIP 180 NSTALSSHKK RHLGTLSDKK SIPSLSSPET DRDEMSVQTK SEDDAELARM MIVDIHEAAE 240 IAAQAVAEAE AAMVEADEAA KQADVAEAEA EAAQAFAQEV SKTLKGIDNC SR

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	Rsa1.0_00289.1_g00005.1

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_018447296.1	0.0	PREDICTED: telomere repeat-binding factor 1-like
Swissprot	Q8VWK4	6e-92	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	M4DCL1	1e-128	M4DCL1_BRARP; Uncharacterized protein
STRING	Bra014227.1-P	1e-129	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM20341	5	6

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	6e-73	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]