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.3NG144300.1.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

LBD

Protein Properties

Length: 171aa MW: 18537.1 Da PI: 8.3139

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.3NG144300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.7	2.3e-44	6	105	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +Ca+Ck+lrr+C+kdC++ap fpa++p+kfa+vhk+FGasnv k+l++lp ++r da+sslvyeA+ar+rdPvyG+vg i+ lq+q++ql Pavir.3NG144300.1.p 6 PCASCKLLRRRCTKDCIFAPFFPADDPHKFAIVHKVFGASNVAKMLQELPVQQRGDAVSSLVYEANARMRDPVYGCVGAISFLQNQVSQL 95 7*************************************************************************************** PP DUF260 91 kaelallkee 100 + +la++++e Pavir.3NG144300.1.p 96 QMQLAVAQAE 105 ****9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.436	5	106	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.5E-44	6	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 171 aa Download sequence Send to blast
MGGGSPCASC KLLRRRCTKD CIFAPFFPAD DPHKFAIVHK VFGASNVAKM LQELPVQQRG 60 DAVSSLVYEA NARMRDPVYG CVGAISFLQN QVSQLQMQLA VAQAEILCIQ MQQRRDCGGG 120 QHHDGPDDVD AVVAAAGGGG AGDHHHHHAM AAAIQQHRRR WWPPTTWTRS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-47	2	107	7	112	LOB family transfactor Ramosa2.1
5ly0_B	2e-47	2	107	7	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in roots, and at low levels in shoots, floral stems and open flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.3NG144300.1.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	FP100852	4e-93	FP100852.1 Phyllostachys edulis cDNA clone: bphyst013p01, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004963862.1	2e-88	LOB domain-containing protein 12
Swissprot	Q8LBW3	6e-69	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	K3ZCF4	4e-87	K3ZCF4_SETIT; Uncharacterized protein
STRING	Pavir.J21476.1.p	1e-113	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP882	38	150

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30130.1	2e-71	LBD family protein

Link Out ? help Back to Top
Phytozome	Pavir.3NG144300.1.p

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715]