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

Tp5g04520

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 225aa MW: 24833.2 Da PI: 6.4986

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp5g04520	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	123.2	1.3e-38	13	113	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +C aCk+lrrkCak+Cv+apyf++eq +++fa++hk+FGasn +kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+l++lk+ Tp5g04520 13 PCGACKFLRRKCAKGCVFAPYFCHEQgASHFAAIHKVFGASNASKLLSHLPISDRCEAAITISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQLETLKQ 112 7***********************89*******************************************************************999 PP DUF260 100 e 100 + Tp5g04520 113 Q 113 8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.083	12	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.9E-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: 225 aa Download sequence Send to blast
MSSSSSSSGS GSPCGACKFL RRKCAKGCVF APYFCHEQGA SHFAAIHKVF GASNASKLLS 60 HLPISDRCEA AITISYEAQA RLQDPIYGCV SHIFALQQQV VNLQAQLETL KQQAAQSMMF 120 VDSPSSETPN SYYGDTTKTP SNHHDHHQEH QNIYHHHDQT HLTYQTGSSG MVQHGDATAN 180 SYSTENSSGF GEFSIYPDLE QQLYTFNQDH LKELQSENLG YISFS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-36	3	108	1	105	LOB family transfactor Ramosa2.1
5ly0_B	2e-36	3	108	1	105	LOB family transfactor Ramosa2.1
Search in ModeBase

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	Tp5g04520

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_013659935.1	1e-137	LOB domain-containing protein 29
Swissprot	Q9M2J7	1e-135	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A291LR11	1e-136	A0A291LR11_BRARR; Transcription factor LBD29
TrEMBL	A0A397Y6T0	1e-136	A0A397Y6T0_BRACM; Uncharacterized protein
STRING	AT3G58190.1	1e-134	(Arabidopsis thaliana)
STRING	Bra007385.1-P	1e-134	(Brassica rapa)

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-116	lateral organ boundaries-domain 29

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]