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_00054958-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: 219aa MW: 23870 Da PI: 6.8278

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00054958-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.7	2.3e-39	7	108	1	101
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkC+k+Cv+apyf++++ +++fa+vhk+FGasnv+kll ++p er +a++++ yeA+ar+rdPvyG+v++i +lqqq+++l+a PSME_00054958-RA 7 PCGACKFLRRKCVKGCVFAPYFASDEgAEHFAAVHKIFGASNVSKLLLHIPIPERCEAVATISYEAQARLRDPVYGCVAHIYALQQQVASLQA 99 7********************99979************************************************************* PP DUF260 93 elallkeel 101 e+ ++++l PSME_00054958-RA 100 EMTFVQAQL 108 *999875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.272	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.5E-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: 219 aa Download sequence Send to blast
MNTEGAPCGA CKFLRRKCVK GCVFAPYFAS DEGAEHFAAV HKIFGASNVS KLLLHIPIPE 60 RCEAVATISY EAQARLRDPV YGCVAHIYAL QQQVASLQAE MTFVQAQLAS RVAFGAASTS 120 MNHPHMYSSS NSQHPHQFPA QLSLPCHPIP QPYNAFLSSV KEENVCGSAS SIDSEFCESP 180 SYTSSPQMKV LQRCRYWEEN GGEDGGDLQA LAHALLMRG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-36	5	108	9	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-36	5	108	9	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT122801	0.0	BT122801.1 Picea sitchensis clone WS0461_G07 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024381331.1	3e-58	LOB domain-containing protein 29-like
Refseq	XP_024381332.1	3e-58	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	2e-55	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	D5A9D3	1e-124	D5A9D3_PICSI; Uncharacterized protein
STRING	PP1S261_2V6.1	5e-56	(Physcomitrella patens)
STRING	XP_004136784.1	4e-56	(Cucumis sativus)
STRING	XP_004159662.1	4e-56	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	9e-58	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]