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

Sof001764

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

MYB_related

Protein Properties

Length: 370aa MW: 40611.9 Da PI: 4.9145

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17328648	PU_unref	Unigene	View CDS
PUT-157a-Saccharum_officinarum-36701	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	34.3	5.4e-11	160	201	2	45
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 ++WT e +ll+++++++ W+ Ia ++g +++ qc+ ++ Sof001764 160 DKWTDEQTLLLLEGIEKYNDT-WDDIAGHVG-TKSKAQCIYHFI 201 69**************855.*****.********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51293	19.365	157	208	IPR017884	SANT domain
SMART	SM00717	7.2E-9	158	206	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	1.42E-11	159	209	IPR009057	Homeodomain-like
Pfam	PF00249	2.1E-10	160	202	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	9.2E-6	160	200	IPR009057	Homeodomain-like
CDD	cd00167	5.73E-8	161	203	No hit	No description
Pfam	PF16495	5.5E-12	333	370	IPR032451	SMARCC, C-terminal

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: 370 aa Download sequence Send to blast
XSRFVRFLDT WGIINYLAAG SVHRGLRMAT SLLREEPTGE LQLLTAPLKS IDGLILFDRP 60 KCTLPAEDVS SMAASSSNSE AVDFDAAFAD LDGKIRERLS ENSCSYCLQP LPSLHYRSQK 120 EADTFLCSDC FHDARYITGH SSLDFQRVDG DNDGSENDSD KWTDEQTLLL LEGIEKYNDT 180 WDDIAGHVGT KSKAQCIYHF IRLPVEDGLL ENVEIPNAAI PFRPQSNGYQ HSDSNGSTSV 240 QNIQQGNQLP FINSSNPVMS LVAFLASSIG PRVAASCAHA ALSFLTRDDD SRVNSEGMHV 300 DGMGNGANPN FQNHNGASPS ISSENVKHAA MFGLSTAAMK SKLFADQEER ESQRLTATVI 360 NHQLKKMELK

Sequence ? help Back to Top

Protein Sequence Length: 370 aa Download sequence Send to blast

XSRFVRFLDT WGIINYLAAG SVHRGLRMAT SLLREEPTGE LQLLTAPLKS IDGLILFDRP  60
KCTLPAEDVS SMAASSSNSE AVDFDAAFAD LDGKIRERLS ENSCSYCLQP LPSLHYRSQK  120
EADTFLCSDC FHDARYITGH SSLDFQRVDG DNDGSENDSD KWTDEQTLLL LEGIEKYNDT  180
WDDIAGHVGT KSKAQCIYHF IRLPVEDGLL ENVEIPNAAI PFRPQSNGYQ HSDSNGSTSV  240
QNIQQGNQLP FINSSNPVMS LVAFLASSIG PRVAASCAHA ALSFLTRDDD SRVNSEGMHV  300
DGMGNGANPN FQNHNGASPS ISSENVKHAA MFGLSTAAMK SKLFADQEER ESQRLTATVI  360
NHQLKKMELK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.17055	0.0	callus\| stem

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021317219.1	0.0	SWI/SNF complex subunit SWI3C isoform X2
Swissprot	Q9XI07	1e-111	SWI3C_ARATH; SWI/SNF complex subunit SWI3C
TrEMBL	A0A1Z5RGY6	0.0	A0A1Z5RGY6_SORBI; Uncharacterized protein
TrEMBL	A0A1Z5RHL3	0.0	A0A1Z5RHL3_SORBI; Uncharacterized protein
STRING	GRMZM2G139760_P01	0.0	(Zea mays)

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]