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

PGSC0003DMP400060875

Common Name

LOC107060314

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

LBD

Protein Properties

Length: 124aa MW: 14537.7 Da PI: 8.8029

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400060875	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127	8.6e-40	5	106	1	101
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeee.redamsslvyeAearardPvyGavgvilklqqqle 88 +CaaCk++rrkC+++Cvlapyfpa+qpkkf+n+h+lFG++n++k+l++l++e+ ++dam+s+++e+++r + PvyG+v+ i+ l+qql+ PGSC0003DMP400060875 5 SCAACKYQRRKCTSKCVLAPYFPANQPKKFQNAHRLFGVRNMVKILDELKDEDqKSDAMKSIIFESDMREKFPVYGCVECISYLRQQLQ 93 6**********************************************666549****************************** PP DUF260 89 qlkaelallkeel 101 + +el+ ++++l PGSC0003DMP400060875 94 ITLQELQDVQSQL 106 *****999875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.452	4	106	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.2E-38	5	103	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009556	Biological Process	microsporogenesis
GO:0009786	Biological Process	regulation of asymmetric cell division
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 124 aa Download sequence Send to blast
MSRVSCAACK YQRRKCTSKC VLAPYFPANQ PKKFQNAHRL FGVRNMVKIL DELKDEDQKS 60 DAMKSIIFES DMREKFPVYG CVECISYLRQ QLQITLQELQ DVQSQLEFYR QQHPTATYPN 120 FDR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-30	2	109	8	114	LOB family transfactor Ramosa2.1
5ly0_B	7e-30	2	109	8	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400060875

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	HG975441	1e-169	HG975441.1 Solanum pennellii chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015163531.1	3e-88	PREDICTED: LOB domain-containing protein 27
Swissprot	Q9STS6	5e-37	LBD27_ARATH; LOB domain-containing protein 27
TrEMBL	M1DHN4	7e-87	M1DHN4_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400089200	1e-87	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1449	23	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G47870.1	2e-39	LOB domain-containing protein 27

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400060875
Entrez Gene	107060314

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] Kim MJ,Kim M,Kim J Combinatorial interactions between LBD10 and LBD27 are essential for male gametophyte development in Arabidopsis. Plant Signal Behav, 2015. 10(8): p. e1044193 [PMID:26252070] Kim M,Kim MJ,Pandey S,Kim J Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development. Plant Cell Physiol., 2016. 57(11): p. 2291-2299 [PMID:27519310]