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

PGSC0003DMP400068942

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: 156aa MW: 17492.9 Da PI: 5.4873

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400068942	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	63.5	5.5e-20	8	69	1	61
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamssl 61 +C aCk+lrrkC+++C++ pyf e+ +k+f +vhk+F+asnv+kll +lp + r+da+ ++ PGSC0003DMP400068942 8 SCGACKFLRRKCSTECIFVPYFIYEEaSKDFSAVHKVFRASNVSKLLLHLPLHYRSDAALTM 69 6*******************998868*************************9998665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	15.019	7	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.5E-18	8	69	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 156 aa Download sequence Send to blast
MTGPAGSSCG ACKFLRRKCS TECIFVPYFI YEEASKDFSA VHKVFRASNV SKLLLHLPLH 60 YRSDAALTMS SSLIEEIEIM ENQMASFQGE VPMHNMNINT LQYSLECNNM NLENTHVNHS 120 ITSPSSANEA FAMHMISGFF IPFFDLDISE RFFEG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-20	5	112	8	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-20	5	112	8	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400068942

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {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_009757428.1	5e-65	PREDICTED: LOB domain-containing protein 33-like
Refseq	XP_016488257.1	5e-65	PREDICTED: LOB domain-containing protein 33-like
Swissprot	Q9LHS8	1e-27	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	M1E093	1e-111	M1E093_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400097267	1e-112	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12769	15	21

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06080.1	6e-29	LOB domain-containing protein 33

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400068942

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] Bargmann BO,Birnbaum KD,Brenner ED An undergraduate study of two transcription factors that promote lateral root formation. Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45 [PMID:24615800]