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.5KG566000.1.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: 130aa MW: 13575.5 Da PI: 6.4975

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG566000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	52.5	1.4e-16	1	56	45	100
DUF260 45 llkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 +l+++p r+da+s+++yeA+ar+ dPvyG+vg+il+lq+q++ ++ael+++++e Pavir.5KG566000.1.p 1 MLSRVPVALRRDAASTVCYEAQARIADPVYGCVGTILALQHQVALVQAELSMAQTE 56 677889999******************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03195	6.5E-17	1	54	IPR004883	Lateral organ boundaries, LOB
PROSITE profile	PS50891	10.628	1	57	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 130 aa Download sequence Send to blast
MLSRVPVALR RDAASTVCYE AQARIADPVY GCVGTILALQ HQVALVQAEL SMAQTELLNR 60 RLALATVNPA YSAASPTSQM VNCIEVEPAG RGLPPPLLLP SQQPQRGGEQ DGGGSPTTVD 120 VFSHNVLGK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-14	1	58	55	112	LOB family transfactor Ramosa2.1
5ly0_B	7e-14	1	58	55	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG566000.1.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	BT086412	1e-83	BT086412.1 Zea mays full-length cDNA clone ZM_BFc0163O13 mRNA, complete cds.
GenBank	KJ727726	1e-83	KJ727726.1 Zea mays clone pUT5666 LOB transcription factor (LOB11) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004970122.1	2e-69	LOB domain-containing protein 4
Swissprot	Q9SRV3	1e-20	LBD20_ARATH; LOB domain-containing protein 20
TrEMBL	A0A3L6R1M5	1e-74	A0A3L6R1M5_PANMI; LOB domain-containing protein 4
STRING	Pavir.J25219.1.p	6e-88	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14085	25	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G03760.1	6e-23	LOB domain-containing protein 20

Link Out ? help Back to Top
Phytozome	Pavir.5KG566000.1.p