AMPDB_3568 | Colicin-B

PEPTIDE SUMMARY

Colicin-B

1 General Description

AMPDB ID: AMPDB_3568

Protein Names: Colicin-B

Protein Family: Channel forming colicin family

Gene Name: cba

Source Organism: Escherichia coli

Protein Length: 511 AA

Protein Existence: Evidence at protein level

2 Protein Sequence & Composition

2.1 Sequence

MSDNEGSVPTEGIDYGDTMVVWPSTGRIPGGDVKPGGSSGLAPSMPPGWGDYSPQGIALVQSVLFPGIIRRIILDKELEEGDWSGWSVSVHSPWGNEKVSAARTVLENGLRGGLPEPSRPAAVSFARLEPASGNEQKIIRLMVTQQLEQVTDIPASQLPAAGNNVPVKYRLTDLMQNGTQYMAIIGGIPMTVPVVDAVPVPDRSRPGTNIKDVYSAPVSPNLPDLVLSVGQMNTPVRSNPEIQEDGVISETGNYVEAGYTMSSNNHDVIVRFPEGSGVSPLYISAVEILDSNSLSQRQEAENNAKDDFRVKKEQENDEKTVLTKTSEVIISVGDKVGEYLGDKYKALSREIAENINNFQGKTIRSYDDAMSSINKLMANPSLKINATDKEAIVNAWKAFNAEDMGNKFAALGKTFKAADYAIKANNIREKSIEGYQTGNWGPLMLEVESWVISGMASAVALSLFSLTLGSALIAFGLSATVVGFVGVVIAGAIGAFIDDKFVDELNHKIIK

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 42, 'R': 18, 'N': 31, 'D': 29, 'C': 0, 'Q': 16, 'E': 33, 'G': 47, 'H': 3, 'I': 37, 'L': 35, 'K': 27, 'M': 14, 'F': 13, 'P': 31, 'S': 46, 'T': 22, 'W': 8, 'Y': 13, 'V': 46

Frequencies of Amino Acids

'A': 8.22%, 'R': 3.52%, 'N': 6.07%, 'D': 5.68%, 'C': 0%, 'Q': 3.13%, 'E': 6.46%, 'G': 9.2%, 'H': 0.59%, 'I': 7.24%, 'L': 6.85%, 'K': 5.28%, 'M': 2.74%, 'F': 2.54%, 'P': 6.07%, 'S': 9%, 'T': 4.31%, 'W': 1.57%, 'Y': 2.54%, 'V': 9%

Missing Amino Acid(s)

Most Occurring Amino Acid(s)

Less Occurring Amino Acid(s)

Hydrophobic Amino Acid(s) Count

273

Hydrophilic Amino Acid(s) Count

238

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	54863 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	89.276	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	40.273	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.178	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.673	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	4.551	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-16.677	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.297, 0.303, 0.243 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.067	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	63370, 63370	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

Cell membrane, 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: Schramm E, Mende J, Braun V, et al. Nucleotide sequence of the colicin B activity gene cba: consensus pentapeptide among TonB-dependent colicins and receptors. J Bacteriol. 1987;169(7):3350-7. Published 1987 Jul. doi:10.1128/jb.169.7.3350-3357.1987

PMID: 2439491

5.2 Protein Sequence Databases

UniProt: P05819

5.3 3D Structure Databases

	Sl. no.	PDB ID	Method	Resolution	Access Links	3D View

AlphaFoldDB: P05819

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	M16816	GenBank \|\| EMBL

CCDS: Not found

RefSeq: WP_001282376.1, YP_008998007.1

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: IPR000293, IPR038283, IPR016128, IPR036302

PANTHER: Not found

PROSITE: PS00276, PS00430

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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