AMPDB_37894 | S-type Pyocin family

PEPTIDE SUMMARY

S-type Pyocin family

1 General Description

AMPDB ID: AMPDB_37894

Protein Names: S-type Pyocin family

Protein Family: Nil

Gene Name: W5S_1594

Source Organism: Pectobacterium parmentieri

Protein Length: 571 AA

Protein Existence: Predicted

2 Protein Sequence & Composition

2.1 Sequence

MPGAARLNDIGSGHDCFPETPITEGSPDVIINGQPAARKGDAVLLHGCPCPNAPHGVHSRKIAEGSSTVIINGKPAARIGDAINCGGVIVSGSGNVIIGDTPHRSPVQECAKQAALTRAPLLVLTPMLAVEPVFAKSCLRGAGCTDAGKEEEPQDNIGEMSVYFSEPVGESSTLADKPGEVKQYAQAAKKKNTSSAVSPTKSFVGKNEPSPKTSLGAINKPQIPPMEPWYKTVFDLLVGKADAAMLPPPQQVVMAGTAAQAGATAAAGGAVAQANQDAAKALTHQMKRLSGPSIWQGQLQMAQSFLLMGALIQHHLKGEKDDLLTQEKLLEVAKKQGTMPSRVRYQWIEDEETGRLKAVGYHTSMESGRDQVRVRLLKHDFPNNRYEFWEEGATGPTILWTPDNPGIELPTDTAHGEQPVIPSAVPGFEIPEMDDVSILATPMPDEKDFRDYILVFPENAFPPIYVYLSKKIDTPIWTKTEDLTPVSNAYTHWIKHRKEFSEKNYNNSKEYVNDTHDFVNNPPAGVLIKKRGNGDTLYYHPESNTFAVMNKHGVPKTMFKPKNKMLYWEKQ

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 53, 'R': 18, 'N': 26, 'D': 29, 'C': 7, 'Q': 24, 'E': 36, 'G': 46, 'H': 16, 'I': 29, 'L': 37, 'K': 42, 'M': 16, 'F': 16, 'P': 50, 'S': 32, 'T': 34, 'W': 8, 'Y': 15, 'V': 37

Frequencies of Amino Acids

'A': 9.28%, 'R': 3.15%, 'N': 4.55%, 'D': 5.08%, 'C': 1.23%, 'Q': 4.2%, 'E': 6.3%, 'G': 8.06%, 'H': 2.8%, 'I': 5.08%, 'L': 6.48%, 'K': 7.36%, 'M': 2.8%, 'F': 2.8%, 'P': 8.76%, 'S': 5.6%, 'T': 5.95%, 'W': 1.4%, 'Y': 2.63%, 'V': 6.48%

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

292

Hydrophilic Amino Acid(s) Count

279

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	62155.6 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	73.152	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	40.622	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.453	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.668	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	6.833	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-3.93	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.249, 0.27, 0.249 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.068	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	66350, 66725	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: Koskinen JP, Laine P, Niemi O, et al. Genome sequence of Pectobacterium sp. strain SCC3193. J Bacteriol. 2012;194(21):6004. Published 2012 Nov. doi:10.1128/JB.00681-12

PMID: 23045508

5.2 Protein Sequence Databases

UniProt: A0A0H3I6X8

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: A0A0H3I6X8

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	CP003415	GenBank \|\| EMBL

CCDS: Not found

RefSeq: WP_014699344.1

5.5 Protein-Protein Interaction Databases

STRING: 1905730.W5S_1594

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: IPR008727, IPR016128, IPR036302

PANTHER: Not found

PROSITE: Not found

5.8 Genome Annotation Databases

Ensembl: Not found

KEGG: pec:W5S_1594

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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