AMPDB_10560 | Type VI secretion system tip protein VgrG

PEPTIDE SUMMARY

Type VI secretion system tip protein VgrG

1 General Description

AMPDB ID: AMPDB_10560

Protein Names: Type VI secretion system tip protein VgrG

Protein Family: Colicin pyosin nuclease family

Gene Name: BER14_28020

Source Organism: Escherichia coli

Protein Length: 572 AA

Protein Existence: Inferred from homology

2 Protein Sequence & Composition

2.1 Sequence

DGLYVRNDRKVTVEGKQEHKTTGNHISLVEGTHSLEVKGDLAEKVSGALGIKVDGDIVLESSSRISLKVGGSFVVVHSGGVDIVGPKINLNGGGSPGTPINTLQPAVMDALADEQYDRGNAGGGNDGEPSDEDESEGGEEDKDDSDELVIPVYAKSCLKEKGCTDAGTTMEPSKHFGDMALFAQPVEDDCCGYGTHYHDDEVEQLAQSAKKTSGANSLTGEMTVASAGVAVPLAAEQSAGVLTRVWGTLGAWGGEGFLSVSKTVPALGVLVSALYPIPAGEGSDKVPGRDEQWLENELRRKAQSGETAATRARFLFQRNTAGELRTYGYHTPAGSELEGVRVALMEWNKEFSRYEFSPVSDSGPKIFWTPAKPEGSEQPIHTGTPVEPVDLPDIYVNPIPDEKTDITTPPSPMPEERNFNDWILVFPDGAELTPIYVYLKTARDEAGTVTGKGEVLAGTGRWLSQAGKSLGVPIPQQVANKLRSKSFNNFDEFRAAFWTAVGECPELLSQFNKANQTLIKRGRAPYTISRQRVGGRGTFEIHHIDEIQYGGEVYDIDNLRVNTPKNHIRLHK

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 42, 'R': 26, 'N': 22, 'D': 36, 'C': 5, 'Q': 18, 'E': 48, 'G': 65, 'H': 13, 'I': 24, 'L': 41, 'K': 31, 'M': 6, 'F': 17, 'P': 35, 'S': 38, 'T': 37, 'W': 8, 'Y': 15, 'V': 45

Frequencies of Amino Acids

'A': 7.34%, 'R': 4.55%, 'N': 3.85%, 'D': 6.29%, 'C': 0.87%, 'Q': 3.15%, 'E': 8.39%, 'G': 11.36%, 'H': 2.27%, 'I': 4.2%, 'L': 7.17%, 'K': 5.42%, 'M': 1.05%, 'F': 2.97%, 'P': 6.12%, 'S': 6.64%, 'T': 6.47%, 'W': 1.4%, 'Y': 2.62%, 'V': 7.87%

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

283

Hydrophilic Amino Acid(s) Count

289

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	61693.6 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	74.476	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	39.368	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.487	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.701	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	4.716	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-26.051	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.262, 0.28, 0.24 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.07	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	66350, 66600	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

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: Knowles M, Stinson S, Lambert D, et al. Genomic Tools for Customized Recovery and Detection of Foodborne Shiga Toxigenic Escherichia coli. J Food Prot. 2016;79(12):2066-2077. Published 2016 Dec. doi:10.4315/0362-028X.JFP-16-220

PMID: 28221970

5.2 Protein Sequence Databases

UniProt: A0A2A6PZT0

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: A0A2A6PZT0

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	NWRY01000102	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: IPR037146, IPR044925, IPR003615, IPR003060, 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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