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

Prupe.1G033400.1.p

Common Name

PRUPE_ppa025327mg

Organism

Prunus persica

Taxonomic ID

3760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

LBD

Protein Properties

Length: 99aa MW: 10809.6 Da PI: 7.0688

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Prupe.1G033400.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	93.6	2.3e-29	7	95	1	88
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88 +C aCk+lrr+C+++C++a +f +e+ +++fa vh +FGas ++kll++l ++ ++ +++yeA+ar++dP+yG+v+ i++lqqq++ Prupe.1G033400.1.p 7 PCGACKYLRRQCVSGCIFALHFRNEDvAAHFAPVHMVFGASMISKLLSHLAFSDCCGTAMTIAYEAHARLEDPIYGCVSQIFALQQQVN 95 7*******************999889*********************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	18.145	6	98	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.6E-28	7	95	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 99 aa Download sequence Send to blast
MSGFHIPCGA CKYLRRQCVS GCIFALHFRN EDVAAHFAPV HMVFGASMIS KLLSHLAFSD 60 CCGTAMTIAY EAHARLEDPI YGCVSQIFAL QQQVNIEL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-25	1	94	5	97	LOB family transfactor Ramosa2.1
5ly0_B	1e-25	1	94	5	97	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in unelongating basal internodes, at the base of shoot in parenchyma cells adjacent to the peripheral vascular cylinder of the stem, and root pericycle cells (PubMed:15829602). Expressed in lateral and adventitious root primordia, tiller primordia, vascular tissues, scutellum, and young pedicels (PubMed:15960615). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Prupe.1G033400.1.p

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
Refseq	XP_020248725.1	1e-39	LOB domain-containing protein 29
Swissprot	Q5UG13	6e-38	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	M5XKU1	8e-67	M5XKU1_PRUPE; Uncharacterized protein
STRING	EMJ26707	1e-67	(Prunus persica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	2e-40	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Prupe.1G033400.1.p
Entrez Gene	18791818

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]