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

PSME_00042628-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

LBD

Protein Properties

Length: 130aa MW: 14030 Da PI: 6.1151

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00042628-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	100.8	1.3e-31	6	93	15	101
DUF260 15 dCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkeel 101 dCv+apyf++++ +++fa+vhk+FGasnv+kll +lp +r +a+ ++ yeA+ r++dPvyG+v++i++lqqq+++l+aela ++++l PSME_00042628-RA 6 DCVFAPYFCSDEgAAHFAAVHKIFGASNVSKLLLHLPMPDRCEAVVTISYEAQTRLQDPVYGCVAHIFALQQQVASLQAELAFVQAQL 93 7*******9989*******************************************************************99885 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	16.691	1	93	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.2E-29	6	90	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 130 aa Download sequence Send to blast
MDSILDCVFA PYFCSDEGAA HFAAVHKIFG ASNVSKLLLH LPMPDRCEAV VTISYEAQTR 60 LQDPVYGCVA HIFALQQQVA SLQAELAFVQ AQLASCVSFG SASIFANHPV ISSSSYSQHL 120 QFPAHLSLPC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-24	7	93	26	111	LOB family transfactor Ramosa2.1
5ly0_B	3e-24	7	93	26	111	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}.

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_027063563.1	1e-49	LOB domain-containing protein 29-like
Refseq	XP_027174376.1	1e-49	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	9e-45	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	D5A9D3	1e-60	D5A9D3_PICSI; Uncharacterized protein
STRING	Aquca_034_00401.1	2e-46	(Aquilegia coerulea)
STRING	PGSC0003DMT400025135	2e-46	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	4e-47	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]