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.5NG519900.1.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: 225aa MW: 22810.1 Da PI: 8.7078

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5NG519900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	117	1.2e-36	42	152	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyf...........paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgv 79 +C aCk+lrr+C+++Cv+ap+f + + +++fa+vhk+FGasnv k+l+++p r+da+s+++yeA+ar+ dPvyG+vg+ Pavir.5NG519900.1.p 42 PCGACKFLRRRCVPGCVFAPHFggggvrehgagAGAGAAQFAAVHKVFGASNVAKMLSRVPVALRRDAASTVCYEAQARIADPVYGCVGT 131 7***********************999887444568************************************************ PP DUF260 80 ilklqqqleqlkaelallkee 100 il+lq+q++ ++ael+ +++e Pavir.5NG519900.1.p 132 ILALQHQVALVQAELSIAQTE 152 **************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.799	41	153	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.1E-40	42	150	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MSRAMQPPGK RAGAAAPAAA PGLAHAQARA AEEAPPGEPG APCGACKFLR RRCVPGCVFA 60 PHFGGGGVRE HGAGAGAGAA QFAAVHKVFG ASNVAKMLSR VPVALRRDAA STVCYEAQAR 120 IADPVYGCVG TILALQHQVA LVQAELSIAQ TELLNRRLSL ATVNPAYSAA SSPTSQMVNC 180 IEIEPAGRGL PPPLLPSHQP QRGGEQDGGG SPTMDVFSHD VLGK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-37	40	154	9	112	LOB family transfactor Ramosa2.1
5ly0_B	9e-37	40	154	9	112	LOB family transfactor Ramosa2.1
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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.5NG519900.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025815329.1	1e-103	LOB domain-containing protein 20-like
Swissprot	Q9SRV3	1e-49	LBD20_ARATH; LOB domain-containing protein 20
TrEMBL	A0A3L6R1M5	1e-105	A0A3L6R1M5_PANMI; LOB domain-containing protein 4
STRING	Pavir.J15413.1.p	1e-125	(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	8e-41	LOB domain-containing protein 20

Link Out ? help Back to Top
Phytozome	Pavir.5NG519900.1.p