AMPDB_5968 | Cytotoxic domain-containing protein

PEPTIDE SUMMARY

Cytotoxic domain-containing protein

1 General Description

AMPDB ID: AMPDB_5968

Protein Names: Cytotoxic domain-containing protein

Protein Family: Nil

Gene Name: VY86_05480

Source Organism: Photorhabdus thracensis

Protein Length: 413 AA

Protein Existence: Predicted

2 Protein Sequence & Composition

2.1 Sequence

MSSVVTDIQVQDVIEKDKQTLAIVKTPARTVSVPVVKAVKTNRQNVFTAKVVPSMPPVHIRISDPPRRNIFSRKEVTPVADVPVKPYTPAPVKNTVDAIVHFPAGSNAEPVYVSVTTVLSTAEAKKQAAEAKQRQEKWEKAHPVEAAERRLYEAEQVFKPLDKIYQEKLKVLNQVKNTPEGKALADPVKNPLVYTKDIEIDGKKLKVEIKTDNKKGLDILLKEGIKAYISAMTLSNFKKLQGIKDPQEAQIQTSAALLKAIYYERFGRRLLDAWKKINPAQNEFNIAMENRKKAEQAKIEAEKHRDKVKEENRKKRKGVKEAGHDYYPAPKTEEIKGLGELRRGPQKTPKQNGGGKRKRWIGEKGRKIYEWDSRHGELEGYRASDGQHIGVFDHKTGKQLAAADPERSIKKFL

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 38, 'R': 24, 'N': 16, 'D': 20, 'C': 0, 'Q': 20, 'E': 34, 'G': 22, 'H': 8, 'I': 25, 'L': 23, 'K': 58, 'M': 4, 'F': 9, 'P': 26, 'S': 15, 'T': 20, 'W': 4, 'Y': 12, 'V': 35

Frequencies of Amino Acids

'A': 9.2%, 'R': 5.81%, 'N': 3.87%, 'D': 4.84%, 'C': 0%, 'Q': 4.84%, 'E': 8.23%, 'G': 5.33%, 'H': 1.94%, 'I': 6.05%, 'L': 5.57%, 'K': 14.04%, 'M': 0.97%, 'F': 2.18%, 'P': 6.3%, 'S': 3.63%, 'T': 4.84%, 'W': 0.97%, 'Y': 2.91%, 'V': 8.47%

Missing Amino Acid(s)

Most Occurring Amino Acid(s)

Less Occurring Amino Acid(s)

M, W

Hydrophobic Amino Acid(s) Count

186

Hydrophilic Amino Acid(s) Count

227

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	46640.8 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	79.104	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	42.575	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.78	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.931	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	10.467	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	28.767	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.262, 0.191, 0.24 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.061	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	39880, 39880	Computed by ProtParam module (biopython 1.79)

4 Activity Details

4.1 Target Organism(s)

E.coli (Gram-negative)

4.2 Antimicrobial Activity

Antibiotic, Antimicrobial, Bacteriocin, Anti-gram-negative

4.3 Enzymatic Activity

Not found

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: Kwak Y, Shin JH, Shin JH. Complete genome sequence of Photorhabdus temperata subsp. thracensis 39-8 T, an entomopathogenic bacterium for the improved commercial bioinsecticide. J Biotechnol. 2015;214:115-6. Published 2015 Nov 20. doi:10.1016/j.jbiotec.2015.09.024

PMID: 26415660

5.2 Protein Sequence Databases

UniProt: A0A0F7LLV7

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: A0A0F7LLV7

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	CP011104	GenBank \|\| EMBL

CCDS: Not found

RefSeq: WP_046974210.1

5.5 Protein-Protein Interaction Databases

STRING: 230089.VY86_05480

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: IPR024575, IPR036725, IPR009105, IPR016128, IPR036302

PANTHER: Not found

PROSITE: Not found

5.8 Genome Annotation Databases

Ensembl: Not found

KEGG: ptt:VY86_05480

5.9 Phylogenomic Databases

GeneTree: Not found

5.10 Enzyme & Pathway Databases

BRENDA: Not found

BioCyc: Not found

5.11 Protein-RNA Interaction Databases

RNAct: Not found

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