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

Csa08g010050.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

MYB

Protein Properties

Length: 336aa MW: 38073.2 Da PI: 8.5908

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa08g010050.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	52.2	1.5e-16	94	139	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg W + Ed +l+++v+q+G+ +W++Ia+++ gR++k+c++rw++ Csa08g010050.1 94 RGHWRPTEDAKLKELVAQFGPQNWNLIAHHLL-GRSGKSCRLRWFNQ 139 899**************************9.*********996 PP
2	Myb_DNA-binding	49.6	8.9e-16	147	189	2	46
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 ++T+eE+ +l+ a++ +G++ W+ I+r ++ gRt++ +k++w+ Csa08g010050.1 147 RAFTEEEECRLLAAHQAYGNK-WAMISRLFP-GRTDNAVKNHWHV 189 689****************.*****.*********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	17.507	89	140	IPR017930	Myb domain
SMART	SM00717	3.4E-14	93	142	IPR001005	SANT/Myb domain
Pfam	PF00249	7.1E-16	94	139	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	3.29E-28	94	187	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.2E-25	95	147	IPR009057	Homeodomain-like
CDD	cd00167	1.17E-12	97	138	No hit	No description
PROSITE profile	PS51294	23.807	141	195	IPR017930	Myb domain
SMART	SM00717	8.7E-14	145	193	IPR001005	SANT/Myb domain
Pfam	PF00249	1.8E-12	147	188	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	9.4E-20	148	194	IPR009057	Homeodomain-like
CDD	cd00167	2.74E-10	148	188	No hit	No description

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: 336 aa Download sequence Send to blast
MNPNLLEKDL RGNEPINGSR RFEDANNFGS LPNSHTTASR KTSLTNLSLS RLHPHNKSAS 60 ALEPEDEHEK EKGENEKSLR MRGKSGINTK VCSRGHWRPT EDAKLKELVA QFGPQNWNLI 120 AHHLLGRSGK SCRLRWFNQL DPRINKRAFT EEEECRLLAA HQAYGNKWAM ISRLFPGRTD 180 NAVKNHWHVI MARRTRESQR QRQQPPQAPS RDAERTVSSS CRYNHEEFFG NVANGSFVNE 240 EDDEDDDDGS AVSTCTTELS LTPPSSAYQP RFLNYDNTLA SGKDGQCVQR AEVNGIYGKK 300 MDHQNHHTIS VSERKVEMKM KSGFYFFDFL GVGAS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	3e-31	94	195	4	105	MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as a cell-specific local repressor of quiescent center (QC) self-renewal by cell divisions in the primary root. Counteracts brassinosteroid (BR)-mediated cell division in the QC cells (PubMed:24981610). Regulates maternally seed size, especially before the heart stage, promoting both endothelial cells expansion and cell number in the outer integument layer of the seed coat (PubMed:23911125). Modulates the expression of genes involved in cell wall metabolism such as cell division and expansion (PubMed:23911125, PubMed:24981610). Negative regulator of flowering via the repression of FT transcription (PubMed:25343985). {ECO:0000269\|PubMed:23911125, ECO:0000269\|PubMed:24981610, ECO:0000269\|PubMed:25343985}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa08g010050.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Levels follow a circadian cycle with a progressive decrease during the day time (at protein level) (PubMed:25343985). Down-regulated by brassinosteroids (BRs) in a dose- and time-dependent manner. Repressed by BES1. Auto-activation of expression (PubMed:24981610). Targeted to 26S proteasomal degradation by the CULLIN3 (CUL3)-based E3 ligases CRL3(BPMs) (PubMed:25343985). {ECO:0000269\|PubMed:24981610, ECO:0000269\|PubMed:25343985}.

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	AK176193	0.0	AK176193.1 Arabidopsis thaliana mRNA for MYB56 R2R3-MYB factor family member, complete cds, clone: RAFL23-05-P12.
GenBank	AK176277	0.0	AK176277.1 Arabidopsis thaliana mRNA for MYB56 R2R3-MYB factor family member, complete cds, clone: RAFL23-20-A13.
GenBank	AY519627	0.0	AY519627.1 Arabidopsis thaliana MYB transcription factor (At5g17800) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010420508.1	0.0	PREDICTED: myb-related protein 315-like
Swissprot	Q6R053	0.0	MYB56_ARATH; Transcription factor MYB56
TrEMBL	D7LXM8	0.0	D7LXM8_ARALL; AtMYB56
STRING	XP_010420508.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9977	18	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G17800.1	0.0	myb domain protein 56

Publications ? help Back to Top
Chen L,Bernhardt A,Lee J,Hellmann H Identification of Arabidopsis MYB56 as a novel substrate for CRL3BPM E3 ligases. Mol Plant, 2015. [PMID:25343985] Frigola D,Caño-Delgado AI,Ibañes M Methods for Modeling Brassinosteroid-Mediated Signaling in Plant Development. Methods Mol. Biol., 2017. 1564: p. 103-120 [PMID:28124249] Espinosa-Ruiz A, et al. TOPLESS mediates brassinosteroid control of shoot boundaries and root meristem development in Arabidopsis thaliana. Development, 2017. 144(9): p. 1619-1628 [PMID:28320734] Jeong CY, et al. AtMyb56 Regulates Anthocyanin Levels via the Modulation of AtGPT2 Expression in Response to Sucrose in Arabidopsis. Mol. Cells, 2018. 41(4): p. 351-361 [PMID:29487277]