PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 345aa MW: 38189.3 Da PI: 8.7426

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3306_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	35.2	2.9e-11	42	92	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++ RrC3306_p2 42 KQKWTQEEESALRSGVIKHGPGKWRTILKDPDfsevlFLRSNVDLKDKWRN 92 79********************************955********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.4E-14	39	102	IPR009057	Homeodomain-like
SMART	SM00717	2.1E-6	41	96	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	8.6E-13	41	93	IPR009057	Homeodomain-like
Pfam	PF00249	2.4E-8	42	92	IPR001005	SANT/Myb domain
PROSITE profile	PS50090	7.677	42	94	IPR017877	Myb-like domain
CDD	cd11660	1.04E-17	43	93	No hit	No description
SMART	SM00526	3.4E-14	146	211	IPR005818	Linker histone H1/H5, domain H15
Gene3D	G3DSA:1.10.10.10	1.7E-12	147	217	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	2.67E-14	147	225	IPR011991	Winged helix-turn-helix DNA-binding domain
PROSITE profile	PS51504	23.445	148	216	IPR005818	Linker histone H1/H5, domain H15
Pfam	PF00538	3.4E-6	154	209	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: 345 aa Download sequence Send to blast
SFFFQKPLEI LPKRKLNQEK LELVSRRSNY SQKSGFVMGA PKQKWTQEEE SALRSGVIKH 60 GPGKWRTILK DPDFSEVLFL RSNVDLKDKW RNMSVMSNGW GSREKSRVGV KRTPSLPKQE 120 DTSLAADSSP PQSDEEMAEE DATGTSAPNV RLDSLIMEAI STIKEPGGSN KTSIGTYIEE 180 QYHAPPDFKR LLSAKLKYLT ARRKLIKVKR KYRIPSSTPL SSHRRKHLGS SSGKQGSLSL 240 PSPKTDGDEV SVEANAQIDP ELDRMKTMNV QEAAAIAAQA VAEAEAATAA AEEAAKDAEL 300 AEAEAEVAQA FAEEAMNTLK GRYNKKCLLM VCIEIFDSTD DPCLR

Sequence ? help Back to Top

Protein Sequence Length: 345 aa Download sequence Send to blast

SFFFQKPLEI LPKRKLNQEK LELVSRRSNY SQKSGFVMGA PKQKWTQEEE SALRSGVIKH  60
GPGKWRTILK DPDFSEVLFL RSNVDLKDKW RNMSVMSNGW GSREKSRVGV KRTPSLPKQE  120
DTSLAADSSP PQSDEEMAEE DATGTSAPNV RLDSLIMEAI STIKEPGGSN KTSIGTYIEE  180
QYHAPPDFKR LLSAKLKYLT ARRKLIKVKR KYRIPSSTPL SSHRRKHLGS SSGKQGSLSL  240
PSPKTDGDEV SVEANAQIDP ELDRMKTMNV QEAAAIAAQA VAEAEAATAA AEEAAKDAEL  300
AEAEAEVAQA FAEEAMNTLK GRYNKKCLLM VCIEIFDSTD DPCLR

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

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	AY062736	5e-76	AY062736.1 Arabidopsis thaliana Unknown protein (At1g49950; F2J10.16) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018461330.1	1e-166	PREDICTED: telomere repeat-binding factor 1-like
Swissprot	Q8VWK4	1e-121	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A078I5Y7	1e-151	A0A078I5Y7_BRANA; BnaC05g50690D protein
TrEMBL	A0A0D3CFX6	1e-151	A0A0D3CFX6_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6FGF4	1e-151	A0A3P6FGF4_BRAOL; Uncharacterized protein
STRING	Bo5g077530.1	1e-151	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8722	25	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	1e-113	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]