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

Potri.002G041100.1

Common Name

POPTR_0002s04200g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

LBD

Protein Properties

Length: 224aa MW: 24633.2 Da PI: 6.2146

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.002G041100.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	128.7	2.6e-40	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp ++r++a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l Potri.002G041100.1 7 PCGACKFLRRKCVRGCVFAPYFCHEQgAQHFAAIHKVFGASNVSKLLAHLPVSDRSEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNL 97 7***********************89*********************************************************** PP DUF260 91 kaelallkee 100 +a+la+lke+ Potri.002G041100.1 98 QAQLASLKEQ 107 ***99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.489	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.7E-38	7	105	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: 224 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAQHFAAI HKVFGASNVS KLLAHLPVSD 60 RSEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVNLQAQ LASLKEQAAQ SFLNGSATTN 120 PNDKYYGKPS YPQELQSWFH SENSSTVPQL NPNNLTNNMP YCENGIMDPN SMGNYGNSSS 180 SFDSFEEASH SMSSFDMQTD NLQWTYQHAD DLQSMAFGYT QHS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-37	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	4e-37	3	101	7	104	LOB family transfactor Ramosa2.1
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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	Potri.002G041100.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002300786.2	1e-169	LOB domain-containing protein 29
Refseq	XP_024450980.1	1e-169	LOB domain-containing protein 29
Swissprot	Q9M2J7	3e-70	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	B9GS34	1e-167	B9GS34_POPTR; Uncharacterized protein
STRING	POPTR_0002s04200.1	1e-168	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3571	33	66
Representative plant	OGRP405	15	100

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42440.1	2e-60	LBD family protein

Link Out ? help Back to Top
Phytozome	Potri.002G041100.1
Entrez Gene	7479981

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]