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.9KG066800.1.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: 198aa MW: 20524.2 Da PI: 8.1271

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.9KG066800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	140.8	4.3e-44	27	126	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +CaaCk+lrr+Ca++Cv+apyfp +p+kfanvhk+FGasnv+kll+++p ++r da+sslvyeA+ar+rdPvyG+vg i++lqqq+e l Pavir.9KG066800.1.p 27 PCAACKLLRRRCAASCVFAPYFPPGEPHKFANVHKVFGASNVSKLLQEIPVQHRGDAVSSLVYEANARVRDPVYGCVGAISSLQQQVEAL 116 7*************************************************************************************** PP DUF260 91 kaelallkee 100 +a+lal+++e Pavir.9KG066800.1.p 117 QAQLALAQAE 126 ****9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.728	26	127	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.3E-43	27	124	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 198 aa Download sequence Send to blast
MRDAGTVASP GGGRAGGAGG AASALAPCAA CKLLRRRCAA SCVFAPYFPP GEPHKFANVH 60 KVFGASNVSK LLQEIPVQHR GDAVSSLVYE ANARVRDPVY GCVGAISSLQ QQVEALQAQL 120 ALAQAEMVRL QMSNDYIVHR FKAARGGGGG GSSYAGSPSS MSSPKTAEPE AHCKATPELL 180 DMVVDQPGMD DAQFWSY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-49	26	129	10	113	LOB family transfactor Ramosa2.1
5ly0_B	2e-49	26	129	10	113	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.9KG066800.1.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	BT069911	0.0	BT069911.1 Zea mays full-length cDNA clone ZM_BFb0321D10 mRNA, complete cds.
GenBank	KJ727650	0.0	KJ727650.1 Zea mays clone pUT5577 LOB transcription factor (LOB19) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025791513.1	3e-95	LOB domain-containing protein 4-like isoform X2
Swissprot	Q8LBW3	3e-57	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A3L6TSK8	1e-103	A0A3L6TSK8_PANMI; LOB domain-containing protein 4-like
STRING	Pavir.Ib04170.1.p	1e-143	(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
AT1G31320.1	7e-36	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Pavir.9KG066800.1.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]