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

OBART11G13980.1

Organism

Oryza barthii

Taxonomic ID

65489

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

MYB_related

Protein Properties

Length: 175aa MW: 19369.9 Da PI: 4.3522

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART11G13980.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	28.7	3.1e-09	137	175	3	43
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksr 43 +WT +E +ll++a + l + W Ia+++ ++t qc ++ OBART11G13980.1 137 SWTDQETLLLLEALEILQAK-WGDIAEHVA-TKTKAQCMLH 175 7*****************.*****.*****998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57850	7.65E-5	83	109	No hit	No description
PROSITE profile	PS51293	16.141	133	175	IPR017884	SANT domain
SuperFamily	SSF46689	1.42E-8	134	175	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.6E-6	136	175	IPR009057	Homeodomain-like
Pfam	PF00249	3.1E-8	137	175	IPR001005	SANT/Myb domain

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: 175 aa Download sequence Send to blast
MDAQLKVLGV LVTLGFDQFP PFSTSCTGEE KIYVVDKLFQ FETLQSYLIP PPNQAEVTAS 60 IHTPSLLSEP TLAEDLITQA ESSVEHHCNS CSVDCSRKRY HCRTQADYDK GNLDAGMSQT 120 DFIIMESAEI PGFGGTSWTD QETLLLLEAL EILQAKWGDI AEHVATKTKA QCMLH

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.

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	AK063994	1e-112	AK063994.1 Oryza sativa Japonica Group cDNA clone:001-124-E10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015633469.1	9e-88	SWI/SNF complex subunit SWI3D isoform X1
Swissprot	Q8VY05	4e-34	SWI3D_ARATH; SWI/SNF complex subunit SWI3D
TrEMBL	A0A0D3HM01	1e-128	A0A0D3HM01_9ORYZ; Uncharacterized protein
STRING	OBART11G13980.1	1e-129	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP21939	4	4

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] Liu ZW, et al. The SET domain proteins SUVH2 and SUVH9 are required for Pol V occupancy at RNA-directed DNA methylation loci. PLoS Genet., 2014. 10(1): p. e1003948 [PMID:24465213] 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]