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.158540.1

Common Name

Csa_5G633830

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: 171aa MW: 19476.9 Da PI: 8.6631

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.158540.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	134.5	4.1e-42	10	108	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 aCaaCk++rr+C+kdC+lapyfpa+qpk f+n+h+lFG+ n++k+lk++++++++++m+s++ye+++r r Pv+G++gvi++l+ q++q+++el Cucsa.158540.1 10 ACAACKYQRRRCSKDCALAPYFPADQPKMFQNAHRLFGVCNIMKILKQVHPSQKDETMTSIIYESNMRSRFPVHGCCGVIWQLHYQIQQVAEELR 104 7*********************************************************************************************9 PP DUF260 96 llke 99 l+++ Cucsa.158540.1 105 LVRS 108 9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.586	9	110	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.3E-40	10	107	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: 171 aa Download sequence Send to blast
MTIKGGTSQA CAACKYQRRR CSKDCALAPY FPADQPKMFQ NAHRLFGVCN IMKILKQVHP 60 SQKDETMTSI IYESNMRSRF PVHGCCGVIW QLHYQIQQVA EELRLVRSRV DMVKEQFNQM 120 NNIGISETAG VVGNNDVAYP IYTQQPQQQQ YNSQQQQYNS ASLVNQGTDA X

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-27	6	103	7	104	LOB family transfactor Ramosa2.1
5ly0_B	3e-27	6	103	7	104	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	LN681889	1e-167	LN681889.1 Cucumis melo genomic scaffold, anchoredscaffold00051.
GenBank	LN713263	1e-167	LN713263.1 Cucumis melo genomic chromosome, chr_9.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022993658.1	1e-88	LOB domain-containing protein 27-like
Swissprot	Q9STS6	2e-45	LBD27_ARATH; LOB domain-containing protein 27
TrEMBL	A0A0A0KXA1	1e-124	A0A0A0KXA1_CUCSA; Uncharacterized protein
STRING	XP_004148705.1	1e-125	(Cucumis sativus)
STRING	XP_004172833.1	1e-125	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4415	29	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G47870.1	2e-47	LOB domain-containing protein 27

Link Out ? help Back to Top
Phytozome	Cucsa.158540.1

Publications ? help Back to Top
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] 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]