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_00055074-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: 233aa MW: 25556.6 Da PI: 6.5676

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00055074-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	111.6	5.5e-35	7	107	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq..pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +C aCk+lrrkC+k+Cv+apyf+ ++ + +f +hk+FGasn +kll +lp ++r da+ s++yeAear++dPv+G+ i++lq+q+e+lk PSME_00055074-RA 7 PCGACKFLRRKCVKGCVFAPYFCTDEmgAPHFGSIHKVFGASNFSKLLLHLPVQQRYDAVVSVLYEAEARIQDPVHGCGLQIFALQKQVESLK 99 7********************9985569************************************************************* PP DUF260 92 aelallke 99 +la+ + PSME_00055074-RA 100 GKLAVSYA 107 99987655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.629	6	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.5E-33	7	104	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 233 aa Download sequence Send to blast
MGGGGSPCGA CKFLRRKCVK GCVFAPYFCT DEMGAPHFGS IHKVFGASNF SKLLLHLPVQ 60 QRYDAVVSVL YEAEARIQDP VHGCGLQIFA LQKQVESLKG KLAVSYAQLA ACRSVAGALH 120 NVDIPHQYIN GNKSHISSPI SNSDSLYKRQ YYPFGDLQSI TSENVAFENC HQEPREDESS 180 YCFPCSHGDS SAYSAQSTTE QTYVLQDAEC LSEQKHPNSD HGDLQDLVSA LLR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	3	117	7	121	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	3	117	7	121	LOB family transfactor Ramosa2.1

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615, ECO:0000269\|PubMed:21806801}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615}.

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
Swissprot	Q5UG13	5e-43	LBD_ORYSJ; LOB domain-containing protein CRL1

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42440.1	6e-45	LBD family protein

Publications ? help Back to Top
Coudert Y,Périn C,Courtois B,Khong NG,Gantet P Genetic control of root development in rice, the model cereal. Trends Plant Sci., 2010. 15(4): p. 219-26 [PMID:20153971] Kitomi Y, et al. The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling. Plant J., 2011. 67(3): p. 472-84 [PMID:21481033] Coudert Y, et al. Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice. BMC Genomics, 2011. 12: p. 387 [PMID:21806801]