PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 222aa MW: 24170.6 Da PI: 6.7411

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00155725001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124.5	5.2e-39	13	113	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkCak+Cv+apyf++eq +++fa++hk+FGasn +kll++lp+++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ + GSBRNA2T00155725001 13 PCGACKFLRRKCAKGCVFAPYFCHEQgASHFAAIHKVFGASNASKLLSQLPTSDRCEAAITISYEAQARLQDPIYGCVSHIFALQQQVVN 102 7***********************89********************************************************** PP DUF260 90 lkaelallkee 100 l+a+l+ lk++ GSBRNA2T00155725001 103 LQAQLEILKQQ 113 *****9997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.441	12	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.2E-36	13	111	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010311	Biological Process	lateral root formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 222 aa Download sequence Send to blast
MSSSSSSSVS GSPCGACKFL RRKCAKGCVF APYFCHEQGA SHFAAIHKVF GASNASKLLS 60 QLPTSDRCEA AITISYEAQA RLQDPIYGCV SHIFALQQQV VNLQAQLEIL KQQVAQSMTF 120 ADSPSSENPN SFYGDTTKTT SYHHDHQNIY HHHDQSHLVN QIGSLGTGQH GDATANSYPS 180 QNSSGFGEFS IYPELEQHLN AFNQDHLKEL QSANFGYISF S*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	3	108	1	105	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	3	108	1	105	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	GSBRNA2T00155725001

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

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	AB473849	0.0	AB473849.1 Arabidopsis thaliana ASL16 mRNA for ASYMMETRIC LEAVES2-like 16 protein, complete cds.
GenBank	AF447893	0.0	AF447893.1 Arabidopsis thaliana LOB DOMAIN 29 (LBD29) mRNA, complete cds.
GenBank	BT025282	0.0	BT025282.1 Arabidopsis thaliana At3g58190 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013659892.1	1e-163	LOB domain-containing protein 29
Swissprot	Q9M2J7	1e-135	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A3P6FIJ0	1e-162	A0A3P6FIJ0_BRAOL; Uncharacterized protein
STRING	Bo8g092560.1	1e-161	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	1e-111	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Entrez Gene	106364967

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]