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

XP_013583706.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 298aa MW: 32897.2 Da PI: 9.4422

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013583706.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	35.5	2.3e-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++ XP_013583706.1 5 KQKWTQEEESALRSGVIKHGPGKWRTILKDPDfsevlFLRSNVDLKDKWRN 55 79********************************955********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	11.281	1	58	IPR017930	Myb domain
SuperFamily	SSF46689	6.5E-15	2	71	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	7.1E-13	4	56	IPR009057	Homeodomain-like
SMART	SM00717	1.1E-5	4	59	IPR001005	SANT/Myb domain
Pfam	PF00249	1.9E-8	5	55	IPR001005	SANT/Myb domain
CDD	cd11660	2.09E-17	6	56	No hit	No description
SMART	SM00526	5.3E-14	106	171	IPR005818	Linker histone H1/H5, domain H15
SuperFamily	SSF46785	3.59E-14	107	185	IPR011991	Winged helix-turn-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	1.6E-12	107	178	IPR011991	Winged helix-turn-helix DNA-binding domain
PROSITE profile	PS51504	23.199	108	176	IPR005818	Linker histone H1/H5, domain H15
Pfam	PF00538	4.6E-6	113	169	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: 298 aa Download sequence Send to blast
MGAPKQKWTQ EEESALRSGV IKHGPGKWRT ILKDPDFSEV LFLRSNVDLK DKWRNMSVIA 60 NGWGSREKSR LAVKRTHSLP KQEATSLANT SPLQSDEEMA DATGTSAPNV RLDSLIMEAI 120 STIKEPGGSN KTSIGTYIEE QYHAPPDFKR LLSAKLKYLT ARRQLIKVKR KYRIPDSTAL 180 SSHRRKHLGT SSGKQRSLSL PSPKTDGDEV SVETNAQIDL ELDKMKTMNV QEAAAVAAQA 240 VAEAEAAMAA AEEAAKDAEL AEAEAEIAQA FAEEALKTLK GRYNNCKMIR AYDDGERR

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	XP_013583706.1

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	2e-84	AY062736.1 Arabidopsis thaliana Unknown protein (At1g49950; F2J10.16) mRNA, complete cds.
GenBank	AY519539	2e-84	AY519539.1 Arabidopsis thaliana MYB transcription factor (At1g49950) mRNA, complete cds.
GenBank	BT009677	2e-84	BT009677.1 Arabidopsis thaliana At1g49950 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013583706.1	0.0	PREDICTED: telomere repeat-binding factor 1-like isoform X2
Refseq	XP_013642221.1	0.0	telomere repeat-binding factor 1 isoform X2
Swissprot	Q8VWK4	1e-131	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A3N6RRU2	0.0	A0A3N6RRU2_BRACR; Uncharacterized protein
STRING	Bo5g077530.1	0.0	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	1e-128	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]