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

Lj1g3v0862930.2

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

MYB_related

Protein Properties

Length: 264aa MW: 29103 Da PI: 5.1518

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj1g3v0862930.2	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	37.6	5.2e-12	79	120	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 +WT +E +ll++a + + + W+ Ia+++g +++ qc+++++ Lj1g3v0862930.2 79 SWTDQETLLLLEAMEIYNEN-WNEIAEHVG-TKSKAQCILHFLR 120 7**************988.*****.********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51293	21.684	75	126	IPR017884	SANT domain
SMART	SM00717	3.3E-11	76	124	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.32E-13	77	130	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	5.7E-8	78	118	IPR009057	Homeodomain-like
CDD	cd00167	3.81E-10	79	121	No hit	No description
Pfam	PF00249	1.2E-11	79	121	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: 264 aa Download sequence Send to blast
MHNADSPDLD DRIREHLSEN HCNYCSRPLP VVYYQSQKEV DILLCTDCFH DGRFVIGHSS 60 IDFMRVDSTR DYGELDGESW TDQETLLLLE AMEIYNENWN EIAEHVGTKS KAQCILHFLR 120 LPMEDGKLEN INVPSMSLSS SVMNRDDNGR LHHHLNGDSA GPIHQSRESD SRLPFANSGN 180 PVMALVSFLA SAVGPRVAAS CAHAALAVLS EDGSGSTSQT EAPGHDNRTN AESVHARDGG 240 PHGETANSIN HNEDKAKMRS TRGQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2yus_A	7e-11	77	130	18	71	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems, leaves, flowers and siliques. {ECO:0000269\|PubMed:14682613}.

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. {ECO:0000269\|PubMed:14682613, ECO:0000269\|PubMed:16055636}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj1g3v0862930.2

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	AC140916	1e-143	AC140916.17 Medicago truncatula clone mth2-12b2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003602057.2	1e-158	SWI/SNF complex subunit SWI3C
Swissprot	Q9XI07	2e-90	SWI3C_ARATH; SWI/SNF complex subunit SWI3C
TrEMBL	G7J4Z5	1e-157	G7J4Z5_MEDTR; Putative transcription factor MYB/SANT family
STRING	GLYMA04G42601.1	1e-155	(Glycine max)

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] Vercruyssen L, et al. ANGUSTIFOLIA3 binds to SWI/SNF chromatin remodeling complexes to regulate transcription during Arabidopsis leaf development. Plant Cell, 2014. 26(1): p. 210-29 [PMID:24443518] 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]