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.6KG414300.2.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: 153aa MW: 16569.9 Da PI: 8.1529

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6KG414300.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	121	6.5e-38	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +kll +lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ + Pavir.6KG414300.2.p 7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKLLIHLPASDRCEAAVTMSYEAQARLQDPIYGCVAHIFSLQQQVVS 96 7***********************89********************************************************** PP DUF260 90 lkaelallkee 100 l+ael++ k++ Pavir.6KG414300.2.p 97 LQAELESCKSQ 107 ***998876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.695	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.5E-36	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 153 aa Download sequence Send to blast
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KLLIHLPASD 60 RCEAAVTMSY EAQARLQDPI YGCVAHIFSL QQQVVSLQAE LESCKSQATQ GYKDGSLTSN 120 PQKESCQRLT PYMQDGQLFF HQTIASNSSE KS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-36	3	121	7	123	LOB family transfactor Ramosa2.1
5ly0_B	2e-36	3	121	7	123	LOB family transfactor Ramosa2.1
Search in ModeBase

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

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.6KG414300.2.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:17259263}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JN672670	2e-91	JN672670.1 Eragrostis tef bio-material GRIN PI524434 clone Tefdw3b, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025820157.1	1e-100	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	3e-66	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A3L6PLU0	1e-101	A0A3L6PLU0_PANMI; LOB domain-containing protein 29-like
STRING	Pavir.Fa00011.1.p	1e-108	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	1e-68	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Pavir.6KG414300.2.p

Publications ? help Back to Top
Gupta A,Singh M,Laxmi A Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis. Plant Physiol., 2015. 168(1): p. 307-20 [PMID:25810094] Porco S, et al. Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3. Development, 2016. 143(18): p. 3340-9 [PMID:27578783] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Xu C,Cao H,Xu E,Zhang S,Hu Y Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation. Plant Cell Physiol., 2018. 59(4): p. 744-755 [PMID:29121271] Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751]