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

Bv9_212190_zpuh.t1

Organism

Beta vulgaris

Taxonomic ID

161934

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta

Family

HB-other

Protein Properties

Length: 236aa MW: 27061.6 Da PI: 4.9645

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bv9_212190_zpuh.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	14.9	4.7e-05	15	72	6	51
S--HHHHHHHHHHHHH..SSS--HHHHHHHHHHC..........TS-HHHHHHHHHHH CS Homeobox 6 tftkeqleeLeelFek..nrypsaeereeLAkkl..........gLterqVkvWFqNr 51 f+++++ e+e+lF++ + +++e ++LA + +++ +qV WFq + Bv9_212190_zpuh.t1 15 VFSESEIAEMENLFRQvgKEALTQEFCKDLAISFssstcrigkpDISWEQVDSWFQDK 72 699**********888************************************75 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16719	5.3E-39	105	232	IPR032001	SAWADEE domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006306	Biological Process	DNA methylation
GO:0006346	Biological Process	methylation-dependent chromatin silencing
GO:0031047	Biological Process	gene silencing by RNA
GO:0003682	Molecular Function	chromatin binding

Sequence ? help Back to Top
Protein Sequence Length: 236 aa Download sequence Send to blast
MEATGMQESM ETTSVFSESE IAEMENLFRQ VGKEALTQEF CKDLAISFSS STCRIGKPDI 60 SWEQVDSWFQ DKQKDSLAFP NASISRKVPE TSIVYKGGTA TEIAELAFEA NSSRDNAWYD 120 VGTFLSYRVL STGELEARVR FAGFGISHDE WVNVKNRIRE RSIPLEPSEC HKIKVGDLVL 180 CYQERLDYAV YVDAHVMEIQ RRLHDIKGCR CIFVVRFDDD KTEEKIQLNK ICCRPR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4iup_A	5e-59	104	235	2	133	SAWADEE HOMEODOMAIN HOMOLOG 1
4iup_B	5e-59	104	235	2	133	SAWADEE HOMEODOMAIN HOMOLOG 1
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Functional Description ? help Back to Top
Source	Description
UniProt	Involved in RNA-directed DNA methylation (RdDM). Required for the silencing of some endogenous RdDM targets and accumulation of 24-nt siRNAs, but not for the production of Pol V-dependent transcripts. Functions in transcriptional silencing through both DNA methylation-dependent and -independent pathways. Required for both maintenance and de-novo DNA methylation. Plays a role in the recruitment of Pol IV to genomic regions associated with K9 methylated histone H3 that are targets for RdDM. {ECO:0000269\|PubMed:21811420, ECO:0000269\|PubMed:22064704, ECO:0000269\|PubMed:23636332, ECO:0000269\|PubMed:23637343}.

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_010690199.1	1e-177	PREDICTED: protein SAWADEE HOMEODOMAIN HOMOLOG 1
Swissprot	Q9XI47	8e-80	SHH1_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 1
TrEMBL	A0A0K9R232	1e-141	A0A0K9R232_SPIOL; Uncharacterized protein
STRING	XP_010690199.1	1e-177	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18380.1	4e-54	sequence-specific DNA binding transcription factors;sequence-specific DNA binding

Publications ? help Back to Top
Liu J, et al. An atypical component of RNA-directed DNA methylation machinery has both DNA methylation-dependent and -independent roles in locus-specific transcriptional gene silencing. Cell Res., 2011. 21(12): p. 1691-700 [PMID:22064704] Law JA, et al. Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1. Nature, 2013. 498(7454): p. 385-9 [PMID:23636332] Ma L, et al. Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway. Genome Biol Evol, 2015. 7(9): p. 2648-62 [PMID:26338185] Wang F,Axtell MJ AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V-dependent loci in Arabidopsis thaliana. Plant J., 2017. 90(1): p. 37-47 [PMID:28002617]