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.5KG668900.1.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: 270aa MW: 29122.2 Da PI: 9.3981

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG668900.1.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	55.6	1.2e-17	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd++l+ ++k +G g+W++ ++ g+ R++k+c++rw +yl Pavir.5KG668900.1.p 14 KGAWTKEEDQRLIAYIKAHGEGCWRSLPKAAGLLRCGKSCRLRWMNYL 61 79****************************99**********97 PP
2	Myb_DNA-binding	54.3	3e-17	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg++T ++del+++++++lG++ W++Ia ++ gRt++++k++w+++ Pavir.5KG668900.1.p 67 RGNFTDDDDELIIKLHALLGNK-WSLIAGQLP-GRTDNEIKNYWNTH 111 89******************.*****.**********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	5.5E-24	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	17.243	9	61	IPR017930	Myb domain
SMART	SM00717	4.1E-14	13	63	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	5.24E-29	13	108	IPR009057	Homeodomain-like
Pfam	PF00249	1.1E-15	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	4.59E-12	16	61	No hit	No description
PROSITE profile	PS51294	27.647	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	6.5E-27	65	116	IPR009057	Homeodomain-like
SMART	SM00717	4.0E-16	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	3.2E-15	67	111	IPR001005	SANT/Myb domain
CDD	cd00167	2.01E-12	69	112	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009739	Biological Process	response to gibberellin
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 270 aa Download sequence Send to blast
MGRSPCCEKA HTNKGAWTKE EDQRLIAYIK AHGEGCWRSL PKAAGLLRCG KSCRLRWMNY 60 LRPDLKRGNF TDDDDELIIK LHALLGNKWS LIAGQLPGRT DNEIKNYWNT HIKRKLLSRG 120 IDPQTHRPLS GGSAAAASGL TTSSTAGFPS PSPAPRPARP VIAIPPNVMF ARPTPSEDGQ 180 SSSGGSTDAP RCPDLNLDLD LSVGPPCSPP KTPAAAASTP TSQQQQQQQR ATICLCYHLG 240 VRGGEACSCK TALPAGFRFL RPLEEGRYI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-29	14	116	7	108	B-MYB
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.23094	1e-131	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expression in flowers increases as the flowers develop. {ECO:0000269\|PubMed:1840903}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems, leaves, seed pods and flowers. {ECO:0000269\|PubMed:1840903}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. {ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG668900.1.p

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	BT035447	0.0	BT035447.1 Zea mays full-length cDNA clone ZM_BFb0063G11 mRNA, complete cds.
GenBank	FP099732	0.0	FP099732.1 Phyllostachys edulis cDNA clone: bphylf047p14, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002456719.1	0.0	myb-related protein 308
Swissprot	P81393	2e-96	MYB08_ANTMA; Myb-related protein 308
TrEMBL	C5XRB4	1e-180	C5XRB4_SORBI; Uncharacterized protein
STRING	Sb03g041360.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP116	37	448

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G38620.1	3e-86	myb domain protein 4

Link Out ? help Back to Top
Phytozome	Pavir.5KG668900.1.p

Publications ? help Back to Top
Jackson D,Culianez-Macia F,Prescott AG,Roberts K,Martin C Expression patterns of myb genes from Antirrhinum flowers. Plant Cell, 1991. 3(2): p. 115-25 [PMID:1840903]