AMPDB_32650 | Colicin B
PEPTIDE SUMMARY
Colicin B
1 General Description
AMPDB ID: AMPDB_32650
Protein Names: Colicin B (Colicin B activity protein) (Pore-forming bacteriocin colicin B)
Protein Family: Channel forming colicin family
Gene Name: cba AF998_003836 BON92_28325 C0P57_004797 CF22_005049 CV83915_04177 D9D43_25650 D9E34_22410 DAH23_26560 DAH24_26790 DAH25_26565 DAH26_26455 DXT73_26005 E2114_26155 E2115_25860 E2116_25890 E2118_25815 E2123_25900 E2124_26035 E2125_26085 E2130_25985 FV293_25320 G3813_005335 GAI89_25270 GKF66_17805 GNW61_27915 GOP25_23955 H6Y26_004808
Source Organism: Escherichia coli
Protein Length: 511 AA
Protein Existence: Inferred from homology
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)
C
Most Occurring Amino Acid(s)
G
Less Occurring Amino Acid(s)
H
Hydrophobic Amino Acid(s) Count
273
Hydrophilic Amino Acid(s) Count
238
Basic Amino Acid(s) Count
62
Acidic Amino Acid(s) Count
48
Modified Amino Acid(s) Count
0
Modified Amino Acid(s) Frequencies
0
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
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: Christenson JK, Gordon DM, Gordon DM. Evolution of colicin BM plasmids: the loss of the colicin B activity gene. Microbiology (Reading). 2009;155(Pt 5):1645-1655. Published 2009 May. doi:10.1099/mic.0.026666-0
PMID: 19372169
Citation 2: Karczmarczyk M, Wang J, Leonard N, et al. Complete nucleotide sequence of a conjugative IncF plasmid from an Escherichia coli isolate of equine origin containing blaCMY-2 within a novel genetic context. FEMS Microbiol Lett. 2014;352(1):123-7. Published 2014 Mar. doi:10.1111/1574-6968.12364
PMID: 24386888
Citation 3: Poyet M, Groussin M, Gibbons SM, et al. A library of human gut bacterial isolates paired with longitudinal multiomics data enables mechanistic microbiome research. Nat Med. 2019;25(9):1442-1452. Published 2019 Sep. doi:10.1038/s41591-019-0559-3
PMID: 31477907
Citation 4: Bai X, Zhang J, Ambikan A, et al. Molecular Characterization and Comparative Genomics of Clinical Hybrid Shiga Toxin-Producing and Enterotoxigenic Escherichia coli (STEC/ETEC) Strains in Sweden. Sci Rep. 2019;9(1):5619. Published 2019 Apr 4. doi:10.1038/s41598-019-42122-z
PMID: 30948755
5.2 Protein Sequence Databases
UniProt: C3UUH3
5.3 3D Structure Databases
No PDB Ids found
AlphaFoldDB: C3UUH3
5.4 Nucleotide Sequence Databases
Sl. no. Accession(s) Access Link(s)
1. FJ664723 GenBank || EMBL
2. FJ664724 GenBank || EMBL
3. FJ664735 GenBank || EMBL
4. FJ664736 GenBank || EMBL
5. FJ664737 GenBank || EMBL
6. FJ664739 GenBank || EMBL
7. FJ664740 GenBank || EMBL
8. FJ664741 GenBank || EMBL
9. FJ664742 GenBank || EMBL
10. FJ664743 GenBank || EMBL
11. KF582523 GenBank || EMBL
12. CP024978 GenBank || EMBL
13. AASFZR010000134 GenBank || EMBL
14. AASWIS010000042 GenBank || EMBL
15. AASWKH010000043 GenBank || EMBL
16. AASWOY010000199 GenBank || EMBL
17. AASZKD010000095 GenBank || EMBL
18. AATHKU010000022 GenBank || EMBL
19. AATJQG010000054 GenBank || EMBL
20. AAVJFG010000059 GenBank || EMBL
21. RNLZ01000090 GenBank || EMBL
22. RNRL01000061 GenBank || EMBL
23. WKUE01000030 GenBank || EMBL
24. SNTR01000084 GenBank || EMBL
25. SNTK01000110 GenBank || EMBL
26. SNTM01000084 GenBank || EMBL
27. SNTL01000099 GenBank || EMBL
28. SNTD01000089 GenBank || EMBL
29. SNTB01000079 GenBank || EMBL
30. SNTC01000096 GenBank || EMBL
31. SNTF01000100 GenBank || EMBL
32. MTXZ01000119 GenBank || EMBL
33. QRFM01000065 GenBank || EMBL
34. QAEV01000038 GenBank || EMBL
35. QAEX01000038 GenBank || EMBL
36. QAEU01000038 GenBank || EMBL
37. QAEW01000035 GenBank || EMBL
38. VRXD01000060 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
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




© 2023 B&BL, DoAS, IIIT-A, UP-211015, India