FlyBase Gene Report: Dmel\LysE

General Information

Symbol

Dmel\LysE

Species

D. melanogaster

Name

Lysozyme E

Annotation Symbol

CG1180

Feature Type

protein_coding_gene

FlyBase ID

FBgn0004428

Gene Model Status

Current

Stock Availability

2 publicly available

Enzyme Name (EC)

Lysozyme (3.2.1.17)

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

61F3-61F3

Sequence location

3L:1,212,827..1,213,406 [+]

Recombination map

3-0

RefSeq locus

NT_037436 REGION:1212827..1213406

Sequence

Get Decorated FASTA

Genomic Maps

GBrowse JBrowse

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Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (4 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

lysozyme activity

inferred from sequence or structural similarity with UniProtKB:P00697

(FlyBase Curators, 2008--)

inferred from sequence or structural similarity

(Daffre et al., 1994)

Biological Process (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

defense response to Gram-negative bacterium

inferred from high throughput mutant phenotype

(Cronin et al., 2009)

negative regulation of innate immune response

inferred from high throughput mutant phenotype

(Cronin et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

defense response to Gram-negative bacterium

inferred from sequence or structural similarity with UniProtKB:P00697

(FlyBase Curators, 2008--)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

extracellular space

inferred from sequence or structural similarity with UniProtKB:C1BF55

(FlyBase Curators, 2008--)

Gene Group (FlyBase)

LYSOZYMES

Protein Family (UniProt)

Belongs to the glycosyl hydrolase 22 family. (P37159)

Protein Signatures (InterPro)

Catalytic Activity (EC)

Experimental Evidence

Predictions / Assertions

Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl- D-glucosamine residues in chitodextrins (3.2.1.17)

Summaries

Gene Group (FlyBase)

LYSOZYMES -: Lysozymes belong to the glycoside hydrolase family 22. Lysozymes damage bacterial cell walls by hydrolyzing the β-(1,4)-glycosidic bond between N-acetyl-muraminic acid and N-acetyl-D-glucosamine of peptidoglycan, causing cell lysis. (Adapted from PMID:22581338, PMID:20413917, PMID:20049505).

Protein Function (UniProtKB)

Unlikely to play an active role in the humoral immune defense. May have a function in the digestion of bacteria in the food.

(UniProt, P37159)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\LysE or the JBrowse view of Dmel\LysE for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Comments on Gene Model

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

LysE-RA

FBtr0072630

NM_057479

580

140

Additional Transcript Data and Comments

Reported size (kB)

0.486 (longest cDNA)

(Daffre et al., 1994)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

LysE-PA

FBpp0072526

15.6

140

6.72

NP_476827

AAF47451

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

140 (aa)

(Daffre et al., 1994)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

P37159

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\LysE using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

LysE_1

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

No Assay Recorded

Stage

Tissue/Position (including subcellular localization)

Reference

larval stage

embryonic/larval midgut

(Daffre et al., 1994)

RNase protection, primer extension, SI map

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult midgut

(Daffre et al., 1994)

larval stage & adult stage

(Daffre et al., 1994)

Additional Descriptive Data

LysE transcripts are detected in the feeding stages (larvae and adults) with maximal expression in third instar larvae. This expression pattern was surmised from RNase protection experiments with a probe from the closely related LysD gene.

(Daffre et al., 1994)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\LysE in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\LysE

View exonic expression by tissue for Dmel\LysE

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0004428

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0004428

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG1180

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of LysE

Transgenic constructs containing regulatory region of LysE

Deletions and Duplications ( 0 )

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (9)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\LYZ

12 of 15

Yes

8 of 15

8 of 15

7 of 15

7 of 15

6 of 15

6 of 15

5 of 15

4 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (9)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Lyz1

12 of 15

Yes

Mmus\Lyz2

12 of 15

Yes

Mmus\9530003J23Rik

11 of 15

Yes

Mmus\Spaca3

9 of 15

Yes

Mmus\Spaca5

9 of 15

Yes

Mmus\Lyzl1

8 of 15

Yes

Mmus\Lyzl6

8 of 15

Mmus\Lalba

5 of 15

Mmus\Lyzl4

4 of 15

Yes

Rattus norvegicus (Norway rat) (9)

Rnor\Lyz2

11 of 13

Yes

Rnor\RGD1306474

10 of 13

Yes

Rnor\Lyc2

9 of 13

Yes

Rnor\Lyzl6

7 of 13

Yes

7 of 13

6 of 13

6 of 13

5 of 13

5 of 13

Xenopus tropicalis (Western clawed frog) (6)

Xtro\MGC89221

4 of 12

Yes

Xtro\LOC100493166

2 of 12

Yes

Xtro\LOC100493330

2 of 12

Yes

Xtro\LOC101730983

2 of 12

Yes

Xtro\lyz

2 of 12

Yes

Xtro\spaca5

2 of 12

Yes

Danio rerio (Zebrafish) (1)

Drer\lyz

6 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190I18 )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Dsuz\DS10_00004542

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila simulans

Drosophila simulans

Drosophila sechellia

Drosophila sechellia

Drosophila sechellia

Drosophila sechellia

Drosophila erecta

Drosophila erecta

Drosophila erecta

Drosophila erecta

Drosophila erecta

Drosophila erecta

Drosophila yakuba

Drosophila yakuba

Drosophila yakuba

Drosophila yakuba

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae