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

RrC13600_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 258aa MW: 27986.6 Da PI: 7.6674

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC13600_p1	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	32.8	1.6e-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++ RrC13600_p1 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	1.17E-13	2	58	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.1E-12	4	56	IPR009057	Homeodomain-like
SMART	SM00717	3.5E-5	4	59	IPR001005	SANT/Myb domain
Pfam	PF00249	2.7E-7	6	55	IPR001005	SANT/Myb domain
CDD	cd11660	1.38E-15	6	56	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 258 aa Download sequence Send to blast
MGAPKHKWSQ EEESALRSAI VKHGPGKWRT ILKDPDFSRV LYLRSNVDLK DKWRNISVMG 60 YGSGSGSRSK SSVAVKKTHG SLPSDEEILK MVDSKNFSTT GSSALQVPSP RTPNWLDSLI 120 NEAISTMKEA CGTGKLIKVK RKYSIPNSTA LSSHKKRHLG TLSDKKSIPS LSSPETDRDE 180 MSVQTKSEDD AELARMMVVD IHEAAEIAAQ AVAEAEAAMV EADEAAKQAD VAEAEAEAAQ 240 AFAQEVSKTL KGIDNCSR

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018447296.1	1e-132	PREDICTED: telomere repeat-binding factor 1-like
Swissprot	Q8VWK4	7e-71	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A3P6BMZ2	7e-98	A0A3P6BMZ2_BRACM; Uncharacterized protein
TrEMBL	M4DCL1	5e-98	M4DCL1_BRARP; Uncharacterized protein
STRING	Bra014227.1-P	8e-99	(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	2e-60	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]