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

PGSC0003DMP400048204

Common Name

LOC102578348

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: 178aa MW: 19805.3 Da PI: 6.746

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400048204	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	132.3	1.9e-41	11	110	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +CaaCk+l+r+C++ C +apyf +++pkkfanvhk+FGasnv+k+l+++p+++red+++slvyeAe+r+rdPvyG++g i +lq+++ + PGSC0003DMP400048204 11 SCAACKFLKRRCTTTCQFAPYFRSDEPKKFANVHKVFGASNVIKILNEVPQDQREDTVNSLVYEAEVRLRDPVYGCIGAIASLQRKMVE 99 6************************************************************************************** PP DUF260 90 lkaelallkee 100 l+++l ++k++ PGSC0003DMP400048204 100 LQHDLMVTKAH 110 **9998876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.114	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.0E-41	11	108	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 178 aa Download sequence Send to blast
MKSNEPRSSS SCAACKFLKR RCTTTCQFAP YFRSDEPKKF ANVHKVFGAS NVIKILNEVP 60 QDQREDTVNS LVYEAEVRLR DPVYGCIGAI ASLQRKMVEL QHDLMVTKAH LAYYEAKPSS 120 TTSNCSLLDY DPLNVNIINT PSFFADTSGG FLDSFSQNTF AMDQTGSNNE FGQFPFP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-45	6	114	6	114	LOB family transfactor Ramosa2.1
5ly0_B	6e-45	6	114	6	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400048204

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	HG975442	0.0	HG975442.1 Solanum pennellii chromosome ch03, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006356469.1	1e-131	PREDICTED: LOB domain-containing protein 21-like
Swissprot	Q9SRL8	2e-57	LBD21_ARATH; LOB domain-containing protein 21
TrEMBL	M1CNG6	1e-130	M1CNG6_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400071281	1e-131	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA43	24	669

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11090.1	8e-60	LOB domain-containing protein 21

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400048204
Entrez Gene	102578348

Publications ? help Back to Top
Weber AP,Weber KL,Carr K,Wilkerson C,Ohlrogge JB Sampling the Arabidopsis transcriptome with massively parallel pyrosequencing. Plant Physiol., 2007. 144(1): p. 32-42 [PMID:17351049] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474]