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

Cucsa.139480.1

Common Name

Csa_6G181550, LOC101207667

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

LBD

Protein Properties

Length: 163aa MW: 18105.8 Da PI: 5.5815

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.139480.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	130.9	5.3e-41	7	106	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +Ca+Ck+lrr+CakdC++apyfp ++p kfa+vhk+FGasnv+k+l+++p ++r da+ss+vyeA ar++dPvyG+vg il lq++++ql+ +l Cucsa.139480.1 7 PCASCKLLRRRCAKDCIFAPYFPPHDPLKFAIVHKIFGASNVSKMLQEVPVDQRADAVSSMVYEASARMQDPVYGCVGKILFLQNEVSQLEIQLG 101 7*******************************************************************************************999 PP DUF260 96 llkee 100 ++++e Cucsa.139480.1 102 AARAE 106 88876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.425	6	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.1E-40	7	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 163 aa Download sequence Send to blast
MGVGSSPCAS CKLLRRRCAK DCIFAPYFPP HDPLKFAIVH KIFGASNVSK MLQEVPVDQR 60 ADAVSSMVYE ASARMQDPVY GCVGKILFLQ NEVSQLEIQL GAARAEILML QMRQQQEASI 120 TFPMTTTQMD QDEQNLMILS NADSSNSFHV FQAADDHYPL WT*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-44	2	126	7	130	LOB family transfactor Ramosa2.1
5ly0_B	2e-44	2	126	7	130	LOB family transfactor Ramosa2.1
Search in ModeBase

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	LN681922	1e-106	LN681922.1 Cucumis melo genomic scaffold, anchoredscaffold00082.
GenBank	LN713265	1e-106	LN713265.1 Cucumis melo genomic chromosome, chr_11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004143222.1	1e-120	PREDICTED: LOB domain-containing protein 12
Swissprot	Q8LBW3	3e-64	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A0A0KBK5	1e-118	A0A0A0KBK5_CUCSA; Uncharacterized protein
STRING	XP_004162401.1	1e-119	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1664	34	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30130.1	1e-66	LBD family protein

Link Out ? help Back to Top
Phytozome	Cucsa.139480.1
Entrez Gene	101207667

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]