AMPDB_89 | Invertebrate-type lysozyme 3

PEPTIDE SUMMARY

Invertebrate-type lysozyme 3

1 General Description

AMPDB ID: AMPDB_89

Protein Names: Invertebrate-type lysozyme 3 (EC 3.2.1.17) (1;4-beta-N-acetylmuramidase)

Protein Family: Glycosyl hydrolase 22 family; Type-I lysozyme subfamily

Gene Name: ilys-3 C45G7.3

Source Organism: Caenorhabditis elegans

Protein Length: 139 AA

Protein Existence: Evidence at protein level

2 Protein Sequence & Composition

2.1 Sequence

MFVKSLVFLTIAVAYASADCLHCICMRESGCKPIGCNMDVGSLSCGYYQIKLPYYEDCGQPTKKSGETTEAAWKRCANDLSCATTCVENYYNRYKSQCAGTGQGACEVMARNHNGGPQGCKHSGTLGYWNGIKSCCGCS

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 11, 'R': 4, 'N': 7, 'D': 4, 'C': 16, 'Q': 5, 'E': 6, 'G': 16, 'H': 3, 'I': 5, 'L': 7, 'K': 9, 'M': 4, 'F': 2, 'P': 4, 'S': 11, 'T': 8, 'W': 2, 'Y': 9, 'V': 6

Frequencies of Amino Acids

'A': 7.91%, 'R': 2.88%, 'N': 5.04%, 'D': 2.88%, 'C': 11.51%, 'Q': 3.6%, 'E': 4.32%, 'G': 11.51%, 'H': 2.16%, 'I': 3.6%, 'L': 5.04%, 'K': 6.47%, 'M': 2.88%, 'F': 1.44%, 'P': 2.88%, 'S': 7.91%, 'T': 5.76%, 'W': 1.44%, 'Y': 6.47%, 'V': 4.32%

Missing Amino Acid(s)

No Amino Acid(s) are missing in this protein

Most Occurring Amino Acid(s)

C, G

Less Occurring Amino Acid(s)

F, W

Hydrophobic Amino Acid(s) Count

Hydrophilic Amino Acid(s) Count

Basic Amino Acid(s) Count

Acidic Amino Acid(s) Count

Modified Amino Acid(s) Count

Modified Amino Acid(s) Frequencies

Computed by biopython (version 1.79) & proteinAnalysis (version 1)

3 Physicochemical Properties

Sl. No.	Properties	Values	Reference
1.	Molecular Mass	14995.1 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	54.101	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	31.28	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.238	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.55	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	7.849	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	2.281	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.223, 0.273, 0.201 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.094	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	24410, 25410	Computed by ProtParam module (biopython 1.79)

4 Activity Details

4.1 Target Organism(s)

Gram Positive Bacteria

4.2 Antimicrobial Activity

Antibiotic, Antimicrobial, Bacteriolytic enzyme, Anti-gram-Positive

4.3 Enzymatic Activity

Glycosidase, Hydrolase

4.4 Inhibitory Effect

Not found

4.5 Other Biological Activity

Non-hemolytic, Non-ribosomal

Activity data manually curated from Literature and UniProt

5 Database Cross-references

5.1 Literature Database

5.1.1 PubMed

Citation 1: C. elegans Sequencing Consortium. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science. 1998;282(5396):2012-8. Published 1998 Dec 11. doi:10.1126/science.282.5396.2012

PMID: 9851916

Citation 2: Irazoqui JE, Troemel ER, Feinbaum RL, et al. Distinct pathogenesis and host responses during infection of C. elegans by P. aeruginosa and S. aureus. PLoS Pathog. 2010;6(7):e1000982. Published 2010 Jul 1. doi:10.1371/journal.ppat.1000982

PMID: 20617181

Citation 3: Gravato-Nobre MJ, Vaz F, Filipe S, et al. The Invertebrate Lysozyme Effector ILYS-3 Is Systemically Activated in Response to Danger Signals and Confers Antimicrobial Protection in C. elegans. PLoS Pathog. 2016;12(8):e1005826. Published 2016 Aug. doi:10.1371/journal.ppat.1005826

PMID: 27525822

5.2 Protein Sequence Databases

UniProt: O76357

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: O76357

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	BX284604	GenBank \|\| EMBL

CCDS: Not found

RefSeq: NP_500206.1

5.5 Protein-Protein Interaction Databases

STRING: 6239.C45G7.3

IntAct: Not found

MINT: Not found

DIP: Not found

BioGRID: Not found

5.6 Ligand Databases

BindingDB: Not found

DrugBank: Not found

ChEMBL: Not found

5.7 Family & Domain Databases

InterPro: IPR008597, IPR023346

PANTHER: PTHR11195

PROSITE: PS51909

5.8 Genome Annotation Databases

Ensembl: ENSGT00940000166559

KEGG: cel:CELE_C45G7.3

5.9 Phylogenomic Databases

GeneTree: ENSGT00940000166559

5.10 Enzyme & Pathway Databases

BRENDA: Not found

BioCyc: Not found

5.11 Protein-RNA Interaction Databases

RNAct: Not found

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