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

Pavir.4NG008700.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

MYB

Protein Properties

Length: 352aa MW: 37570.4 Da PI: 6.3068

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.4NG008700.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	56.9	4.6e-18	15	62	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd+llvd++k G g+W++ ++ g++R++k+c++rw +yl Pavir.4NG008700.1.p 15 KGPWTPEEDKLLVDYIKDNGHGSWRRLPKLAGLNRCGKSCRLRWTNYL 62 79********************************************97 PP
2	Myb_DNA-binding	58.3	1.7e-18	68	113	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rgr+T eE++l+++++ lG++ W++Ia +++ gRt++++k++w+++l Pavir.4NG008700.1.p 68 RGRFTDEEEKLIIHLHSILGNK-WSSIATKLP-GRTDNEIKNYWNTHL 113 89******************.*****.**********996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	17.996	10	62	IPR017930	Myb domain
SuperFamily	SSF46689	2.27E-30	12	109	IPR009057	Homeodomain-like
SMART	SM00717	1.3E-14	14	64	IPR001005	SANT/Myb domain
Pfam	PF00249	2.9E-16	15	62	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.8E-23	16	69	IPR009057	Homeodomain-like
CDD	cd00167	1.34E-11	17	62	No hit	No description
PROSITE profile	PS51294	28.063	63	117	IPR017930	Myb domain
SMART	SM00717	4.0E-17	67	115	IPR001005	SANT/Myb domain
Pfam	PF00249	1.4E-16	68	113	IPR001005	SANT/Myb domain
CDD	cd00167	2.55E-13	70	113	No hit	No description
Gene3D	G3DSA:1.10.10.60	7.5E-27	70	117	IPR009057	Homeodomain-like

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: 352 aa Download sequence Send to blast
MGRSPCCDQD AGVKKGPWTP EEDKLLVDYI KDNGHGSWRR LPKLAGLNRC GKSCRLRWTN 60 YLRPDIKRGR FTDEEEKLII HLHSILGNKW SSIATKLPGR TDNEIKNYWN THLRKKLLSM 120 GIDPVTHRPR TDLNLLAGIP NLLAAAQAQT TACWDINALR LQADAAKYQL LQGLLRALVT 180 PPAVPTVDLM ALLAAGATNG GVSVSQPAAG VDHQQGTRAQ YDGLLNLPAL TSLPAATLPA 240 MSSSFSGLLS SFGAGSALAG DGLSSTELGH SGASGSTAAM APPPLVAAKE CNDGGSGGTS 300 TPCEDTPASS PFEGLENLNL DDEFNSDSWK DLLEQMSWLN NPNDHDQQQL M*

Sequence ? help Back to Top

Protein Sequence Length: 352 aa Download sequence Send to blast

MGRSPCCDQD AGVKKGPWTP EEDKLLVDYI KDNGHGSWRR LPKLAGLNRC GKSCRLRWTN  60
YLRPDIKRGR FTDEEEKLII HLHSILGNKW SSIATKLPGR TDNEIKNYWN THLRKKLLSM  120
GIDPVTHRPR TDLNLLAGIP NLLAAAQAQT TACWDINALR LQADAAKYQL LQGLLRALVT  180
PPAVPTVDLM ALLAAGATNG GVSVSQPAAG VDHQQGTRAQ YDGLLNLPAL TSLPAATLPA  240
MSSSFSGLLS SFGAGSALAG DGLSSTELGH SGASGSTAAM APPPLVAAKE CNDGGSGGTS  300
TPCEDTPASS PFEGLENLNL DDEFNSDSWK DLLEQMSWLN NPNDHDQQQL M*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	1e-29	15	117	7	108	B-MYB
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Specifically and transiently expressed in root endodermal cells overlying the early stages of lateral root primordia formation. {ECO:0000269\|PubMed:24902892, ECO:0000269\|PubMed:25482809}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as negative regulator of lateral root (LR) development. Required for normal auxin responses during LR development. May be part of a negative feedback loop stimulated specifically in the endodermis upon LR initiation to ensure that LRs are formed only in the correct place. {ECO:0000269\|PubMed:24902892}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.4NG008700.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by abscisic acid (ABA), auxin and gravity in roots. {ECO:0000269\|PubMed:24902892}.

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	KJ727665	1e-170	KJ727665.1 Zea mays clone pUT5592 MYB transcription factor (MYB148) gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025811879.1	0.0	transcription factor MYB93-like
Swissprot	Q9S9Z2	1e-80	MYB93_ARATH; Transcription factor MYB93
TrEMBL	A0A2S3HME5	0.0	A0A2S3HME5_9POAL; Uncharacterized protein
STRING	Pavir.J23197.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP5529	31	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G16770.2	3e-82	myb domain protein 9

Link Out ? help Back to Top
Phytozome	Pavir.4NG008700.1.p

Publications ? help Back to Top
Gibbs DJ,Coates JC AtMYB93 is an endodermis-specific transcriptional regulator of lateral root development in arabidopsis. Plant Signal Behav, 2014. 9(10): p. e970406 [PMID:25482809]