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.5KG014300.3.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

LBD

Protein Properties

Length: 248aa MW: 26592.5 Da PI: 9.6009

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG014300.3.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	136.8	8e-43	33	131	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +CaaCk+lrrkC++ Cv+apyfp ++p+kf vh++FGasnv+kll++l++ +reda++sl+yeA++r+rdPvyG+vgvi+ lq++l+ql Pavir.5KG014300.3.p 33 PCAACKFLRRKCQPACVFAPYFPPDNPQKFVHVHRVFGASNVTKLLNELHPFQREDAVNSLAYEADMRLRDPVYGCVGVISILQHNLRQL 122 7*************************************************************************************** PP DUF260 91 kaelallke 99 +++la++k Pavir.5KG014300.3.p 123 QQDLARAKY 131 **99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.493	32	133	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.1E-42	33	129	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 248 aa Download sequence Send to blast
MASSVPAPSG SVITVASSSS SATAAAVCGT GSPCAACKFL RRKCQPACVF APYFPPDNPQ 60 KFVHVHRVFG ASNVTKLLNE LHPFQREDAV NSLAYEADMR LRDPVYGCVG VISILQHNLR 120 QLQQDLARAK YELSKYQAAA AAASASMGPN GPQAMAEFIG SAVPNGAHNF INIGHSPALG 180 SIGGSPAAFG QEQFANAQML SRSYDGEPIA RLGIRVFNSG MKKNRLSPIK SKYRDFLFLF 240 LFFMFYF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-53	29	136	7	114	LOB family transfactor Ramosa2.1
5ly0_B	3e-53	29	136	7	114	LOB family transfactor Ramosa2.1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In embryo sac, detected as early as the one-nucleus stage. In older embryo sacs, highest expression in antipodal cells. {ECO:0000269\|PubMed:17209126}.
Uniprot	TISSUE SPECIFICITY: Expressed in leaves, leaf primordia, immature ears, immature tassels, whole ovules, silk and husk leaves. Found on the adaxial side of organs. {ECO:0000269\|PubMed:17209126}.

Functional Description ? help Back to Top
Source	Description
UniProt	Promotes the switch from proliferation to differentiation in the embryo sac. Negative regulator of cell proliferation in the adaxial side of leaves. Regulates the formation of a symmetric lamina and the establishment of venation. Interacts directly with RS2 (rough sheath 2) to repress some knox homeobox genes. {ECO:0000269\|PubMed:17209126}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG014300.3.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	AY940681	0.0	AY940681.1 Zea mays ASYMMETRIC LEAVES2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025817833.1	1e-137	LOB domain-containing protein 6
Refseq	XP_025817835.1	1e-137	LOB domain-containing protein 6
Swissprot	Q32SG3	1e-130	LBD6_MAIZE; LOB domain-containing protein 6
TrEMBL	A0A2S3HPE2	1e-136	A0A2S3HPE2_9POAL; Uncharacterized protein
STRING	Pavir.J22284.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G65620.4	6e-57	LBD family protein

Link Out ? help Back to Top
Phytozome	Pavir.5KG014300.3.p