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.6KG414300.3.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: 215aa MW: 23697.5 Da PI: 6.133

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6KG414300.3.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	119.7	1.7e-37	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.6KG414300.3.p 7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKLLIHLPASDRCEAAVTMSYEAQARLQDPIYGCVAHIFSLQQQVVS 96 7***********************89********************************************************** PP DUF260 90 lkaelallkee 100 l+ael++ k++ Pavir.6KG414300.3.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	2.1E-35	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 215 aa Download sequence Send to blast
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KLLIHLPASD 60 RCEAAVTMSY EAQARLQDPI YGCVAHIFSL QQQVVSLQAE LESCKSQATQ GYKDGSLTSN 120 PQKESCQRLT PYMQDGQLFF HQTIASNSSE KSESQLYFAN DCFNSESTQY SEGYEPDLCM 180 PDYNNSNPSC NMQRIGYHNM DNLQSVAFAY LNEA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	3	121	7	123	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	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.6KG414300.3.p

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025820157.1	1e-140	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	6e-65	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A3L6PLU0	1e-144	A0A3L6PLU0_PANMI; LOB domain-containing protein 29-like
STRING	Pavir.Fa00011.1.p	1e-158	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	2e-67	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Pavir.6KG414300.3.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]