AMPDB_41368 | Putative S-type colicin

PEPTIDE SUMMARY

Putative S-type colicin

1 General Description

AMPDB ID: AMPDB_41368

Protein Names: Putative S-type colicin

Protein Family: Nil

Gene Name: Xish_02194

Source Organism: Xenorhabdus ishibashii

Protein Length: 604 AA

Protein Existence: Predicted

2 Protein Sequence & Composition

2.1 Sequence

MSDTGRLDCVPCNTFKHWLEFQLLDSQGKPLIGIPYHLKSRDGVIKANGVTNGQGVLREENLSPLPMTLHVNAQKLADQLVEKHSVAAVKNEKASGSSPAIMPGELSDGLPKIEGWTEEALQTKYYTDREYPGITVIPEHNRRHVIAVERIVKPVFAKSCLQPLGCTDAGTETEPAANFGQLQVYLPAPTSQAPATASAAQDKNTPPWYMVPIGWLLDQVVPPAQAHPLVFQAMETQMALGAAVGTASNNDGSWETESAPPLISEKEKLFMAAIVSSTPTDRAQLAWGALKRAFGADSDTAQHQLERLKQLADQKGRAETRVRYRFVEDEKSGKVKVVGYHTREGSGMDTVKVRHVKQTAPGTYEFREDGADSPILVWYTNASSMYKALSPQELPQYFNQRGTPINVNTVPLDDPSMTGQTPGLEIPEQPTWRDGVMGNPQQDPNEMAGNKTETPISDGTDRGPTKTTTPVQESDFRDYILIFPIEGVPAVYVYLSKIEELDSDKYTRRQLDRKFKHAKDFGIDSTRKNKETLTQFRDAIEEHLNDAETFEKGTYLLENGSKVFFNTKTNNVVVIGNDGMFLSCWKLSPGTAQYENYIEKDTLR

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 47, 'R': 27, 'N': 26, 'D': 36, 'C': 5, 'Q': 32, 'E': 43, 'G': 43, 'H': 12, 'I': 24, 'L': 46, 'K': 38, 'M': 13, 'F': 19, 'P': 43, 'S': 34, 'T': 48, 'W': 9, 'Y': 19, 'V': 40

Frequencies of Amino Acids

'A': 7.78%, 'R': 4.47%, 'N': 4.3%, 'D': 5.96%, 'C': 0.83%, 'Q': 5.3%, 'E': 7.12%, 'G': 7.12%, 'H': 1.99%, 'I': 3.97%, 'L': 7.62%, 'K': 6.29%, 'M': 2.15%, 'F': 3.15%, 'P': 7.12%, 'S': 5.63%, 'T': 7.95%, 'W': 1.49%, 'Y': 3.15%, 'V': 6.62%

Missing Amino Acid(s)

No Amino Acid(s) are missing in this protein

Most Occurring Amino Acid(s)

Less Occurring Amino Acid(s)

Hydrophobic Amino Acid(s) Count

284

Hydrophilic Amino Acid(s) Count

320

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	66977.4 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	72.185	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	38.309	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.565	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.723	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	5.432	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-13.156	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.26, 0.242, 0.247 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.078	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	77810, 78060	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: Tobias NJ, Wolff H, Djahanschiri B, et al. Natural product diversity associated with the nematode symbionts Photorhabdus and Xenorhabdus. Nat Microbiol. 2017;2(12):1676-1685. Published 2017 Dec. doi:10.1038/s41564-017-0039-9

PMID: 28993611

5.2 Protein Sequence Databases

UniProt: A0A2D0KHQ5

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: A0A2D0KHQ5

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	NJAK01000001	GenBank \|\| EMBL

CCDS: Not found

RefSeq: Not found

5.5 Protein-Protein Interaction Databases

STRING: Not found

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: IPR038233, IPR024440, IPR037178, IPR016128, IPR036302

PANTHER: Not found

PROSITE: Not found

5.8 Genome Annotation Databases

Ensembl: Not found

KEGG: Not found

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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