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

PGSC0003DMP400017664

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

MYB_related

Protein Properties

Length: 272aa MW: 30388.2 Da PI: 4.4346

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400017664	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	39.7	1.1e-12	37	80	2	47
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 WT E + l++a +G + Wk++a+++g gR+ k+c+ r+ k+ PGSC0003DMP400017664 37 TDWTDKETLHLLEALMHYGDD-WKKVAEHVG-GRSTKECVARFVKL 80 57***************88.*****.********9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51293	20.436	34	85	IPR017884	SANT domain
SMART	SM00717	6.3E-10	35	83	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.0E-9	35	77	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.2E-13	35	89	IPR009057	Homeodomain-like
Pfam	PF00249	2.5E-12	37	80	IPR001005	SANT/Myb domain
CDD	cd00167	3.29E-8	39	80	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 272 aa Download sequence Send to blast
MQYDLTLCAR CYVSNDNRVG VNNSELRRVE ISEEVKTDWT DKETLHLLEA LMHYGDDWKK 60 VAEHVGGRST KECVARFVKL PFGEQFMGPP ESAEVDSESR SETMYLQSKR RRLTPFADTS 120 NPIIAQAAFL SALAGKEVTE LAAHAAVTAL SEIDEGITTG SPASLLCGAE RQESDGKDKL 180 ERPLVEAMVQ FEKEALDLER AVSDVAIETK EIEDSIAHFE ERDLQMEKEW QQLIQLKNLI 240 FIDQLTLLVN KSGAPKAGET IREEVIDVKT E*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	108	112	KRRRL

Functional Description ? help Back to Top
Source	Description
UniProt	Component of a multiprotein complex equivalent of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors. May play an essential role in the transition from the vegetative to the reproductive phase of development. May be a positive regulator of ABA signaling. {ECO:0000269\|PubMed:12140326, ECO:0000269\|PubMed:14682613, ECO:0000269\|PubMed:16055636, ECO:0000269\|PubMed:19033529}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400017664

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	BT014458	0.0	BT014458.1 Lycopersicon esculentum clone 133805R, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006342179.1	0.0	PREDICTED: SWI/SNF complex subunit SWI3B
Swissprot	Q84JG2	7e-70	SWI3B_ARATH; SWI/SNF complex subunit SWI3B
TrEMBL	M1AMA6	0.0	M1AMA6_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400025895	0.0	(Solanum tuberosum)

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400017664

Publications ? help Back to Top
Sarnowski TJ,Swiezewski S,Pawlikowska K,Kaczanowski S,Jerzmanowski A AtSWI3B, an Arabidopsis homolog of SWI3, a core subunit of yeast Swi/Snf chromatin remodeling complex, interacts with FCA, a regulator of flowering time. Nucleic Acids Res., 2002. 30(15): p. 3412-21 [PMID:12140326] Zhou C,Miki B,Wu K CHB2, a member of the SWI3 gene family, is a global regulator in Arabidopsis. Plant Mol. Biol., 2003. 52(6): p. 1125-34 [PMID:14682613] Sarnowski TJ, et al. SWI3 subunits of putative SWI/SNF chromatin-remodeling complexes play distinct roles during Arabidopsis development. Plant Cell, 2005. 17(9): p. 2454-72 [PMID:16055636] Archacki R, et al. Genetic analysis of functional redundancy of BRM ATPase and ATSWI3C subunits of Arabidopsis SWI/SNF chromatin remodelling complexes. Planta, 2009. 229(6): p. 1281-92 [PMID:19301030] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] Zhu Y,Rowley MJ,Böhmdorfer G,Wierzbicki AT A SWI/SNF chromatin-remodeling complex acts in noncoding RNA-mediated transcriptional silencing. Mol. Cell, 2013. 49(2): p. 298-309 [PMID:23246435] Liu ZW, et al. Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis. PLoS Genet., 2016. 12(5): p. e1006026 [PMID:27171427] Han W, et al. The SWI/SNF subunit SWI3B regulates IAMT1 expression via chromatin remodeling in Arabidopsis leaf development. Plant Sci., 2018. 271: p. 127-132 [PMID:29650150]