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_00054800-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: 238aa MW: 25945.7 Da PI: 6.5002

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00054800-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	118.4	4.1e-37	7	104	1	96
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq..pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +C aCk+lrrkC+k+Cv+apyf++e+ + +f ++hk+FGasn +kll +lp ++r da+ s++yeAear++dPvyG+v++i +lqqq+++lk PSME_00054800-RA 7 PCGACKFLRRKCVKGCVFAPYFCSEEmgATHFGAIHKVFGASNFSKLLMHLPVHQRFDAVVSVLYEAEARLQDPVYGCVSHIYALQQQVAHLK 99 7*********************995569***********************************************************99 PP DUF260 92 aelal 96 +la+ PSME_00054800-RA 100 GNLAV 104 88875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.045	6	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.2E-36	7	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 238 aa Download sequence Send to blast
MSSGGAPCGA CKFLRRKCVK GCVFAPYFCS EEMGATHFGA IHKVFGASNF SKLLMHLPVH 60 QRFDAVVSVL YEAEARLQDP VYGCVSHIYA LQQQVAHLKG NLAVGYAQLA DSSSSDGASL 120 GPKYGYGNQS ETPPLMSNSN SSNSYDKQYL NRRENLQQIP SDNIAINNSN EEPREDERSW 180 SNFSVCAQEG IHPRSTAQEA DVLQDADTLS GQRHPNDSGQ GGDLQDLVSA LLRRNRSA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-38	4	109	8	111	LOB family transfactor Ramosa2.1
5ly0_B	6e-38	4	109	8	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_020085396.1	6e-53	LOB domain-containing protein 29-like
Refseq	XP_021629218.1	5e-53	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	5e-50	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A199VG68	4e-51	A0A199VG68_ANACO; LOB domain-containing protein 29 (Fragment)
TrEMBL	A0A251JLS2	1e-51	A0A251JLS2_MANES; Uncharacterized protein
STRING	cassava4.1_032309m	7e-53	(Manihot esculenta)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	4e-49	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]