Bacteriocin: pediocin PA-1 (Pediocin ACH)
Accession: BAC083
Classification
Class: class IIA/YGNGV
Genetics
Gene: pedA; Synonyms=pap, papA
Producer and target organisms
Producer Organism: Pediococcus acidilactici [Gram-positive]
Taxonomy: BacteriaFirmicutes
Lactobacillales
Lactobacillaceae
Pediococcus
Target organismsPediococci - Lactobacilli - Leuconostoc - Brochothrix thermosphacta - propionibacteria - Bacilli - Enterococci - Staphylococci - Listeria clostridia - Listeria monocytogenes - Listeria innocua
Description
Mode of action:
Bactericidal activity (effective inhibitor of Listeria monocytogenes).
Bactericidal activity (effective inhibitor of Listeria monocytogenes).
Uniprot and PDB links
PDB Entry5UKZ resolved by NMR
NUCLEOTIDE SEQUENCE [GENOMIC DNA], STRAIN=PAC-1.0; PLASMID=pSRQ11
MEDLINE=92384551;PubMed=1514784;
Marugg J.D., Gonzalez C.F., Kunka B.S., Ledeboer A.M., Pucci M.J., Toonen M.Y., Walker S.A., Zoetmulder L.C.M., Vandenbergh P.A.
"Cloning, expression, and nucleotide sequence of genes involved in production of pediocin PA-1, and bacteriocin from Pediococcus acidilactici PAC1.0.", Appl. Environ. Microbiol. 58:2360-2367(1992).
MEDLINE=92384551;PubMed=1514784;
Marugg J.D., Gonzalez C.F., Kunka B.S., Ledeboer A.M., Pucci M.J., Toonen M.Y., Walker S.A., Zoetmulder L.C.M., Vandenbergh P.A.
"Cloning, expression, and nucleotide sequence of genes involved in production of pediocin PA-1, and bacteriocin from Pediococcus acidilactici PAC1.0.", Appl. Environ. Microbiol. 58:2360-2367(1992).
NUCLEOTIDE SEQUENCE [GENOMIC DNA], STRAIN=H; PLASMID=pSMB74
MEDLINE=94288967;PubMed=7764941;
Motlagh A.M., Bukhtiyarova M.B., Ray B.R.
"Complete nucleotide sequence of pSMB 74, a plasmid encoding the production of pediocin AcH in Pediococcus acidilactici.", Lett. Appl. Microbiol. 18:305-312(1994).
MEDLINE=94288967;PubMed=7764941;
Motlagh A.M., Bukhtiyarova M.B., Ray B.R.
"Complete nucleotide sequence of pSMB 74, a plasmid encoding the production of pediocin AcH in Pediococcus acidilactici.", Lett. Appl. Microbiol. 18:305-312(1994).
PROTEIN SEQUENCE OF 19-62, AND DISULFIDE BONDS, STRAIN=PAC-1.0; PLASMID=pSRQ11
MEDLINE=92246549;PubMed=1575516;
Henderson J.T., Chopko A.L., van Wassenaar P.D.
"Purification and primary structure of pediocin PA-1 produced by Pediococcus acidilactici PAC-1.0.", Arch. Biochem. Biophys. 295:5-12(1992).
MEDLINE=92246549;PubMed=1575516;
Henderson J.T., Chopko A.L., van Wassenaar P.D.
"Purification and primary structure of pediocin PA-1 produced by Pediococcus acidilactici PAC-1.0.", Arch. Biochem. Biophys. 295:5-12(1992).
PROTEIN SEQUENCE OF 19-61.
MEDLINE=93019000;PubMed=1402795;
Lozano J.C.N., Meyer J.N., Sletten K., Pelaz C., Nes I.F.
"Purification and amino acid sequence of a bacteriocin produced by Pediococcus acidilactici.", J. Gen. Microbiol. 138:1985-1990(1992).
MEDLINE=93019000;PubMed=1402795;
Lozano J.C.N., Meyer J.N., Sletten K., Pelaz C., Nes I.F.
"Purification and amino acid sequence of a bacteriocin produced by Pediococcus acidilactici.", J. Gen. Microbiol. 138:1985-1990(1992).
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Gene structure
Gene id | Name | Description | Location |
BACGene297 | repB | RepB Orf319; involved in plasmid replication and maintenance; frequently found intheta-replicating plasmids from lactic acid bacteria | 800..1759 |
BACGene298 | repB | replication protein Orf192; involved in plasmid replication and maintenance; frequently found intheta-replicating plasmids from lactic acid bacteria; OrfX | 1752..2330 |
BACGene299 | papA | PapA | 3271..3459 |
BACGene300 | papB | PapB | 3497..3835 |
BACGene301 | papC | PapC | 3859..4383 |
BACGene302 | papD | PapD | 4482..6656 |
BACGene303 | papD | PemK-like protein Orf114b; plasmid maintenance system protein | complement(7247..7591) |
BACGene304 | papD | PemI-like protein Orf114a; plasmid maintenance system protein | complement(7585..7929) |
BACGene305 | papD | tyrosine recombinase Orf264; involved in plasmid replication and maintenance; frequently found intheta-replicating plasmids from lactic acid bacteria | 7727..8521 |
Protein sequence
........10 ........20 ........30 ........40 ........50 | | | | | KYYGNGVTCG KHSCSVDWGK ATTCIINNGA MAWATGGHQG NHKC |
Wheel representation
3D Structure
Protein sequence annotations
Feature | Position(s) | Length | Description |
CHAIN | 1↔44 | 44 | Bacteriocin pediocin PA-1. Feature identifier = PRO_0000002746.
|
REGION | 22↔34 | 13 | Hydrophobic. |
DISULFID | 9↔14 | 6 | |
DISULFID | 24↔44 | 21 |
Composition
Hydrophobicity
Composition
Formula | C196
H297
N61
O60
S5 |
Absent amino acids | EFLPR |
Common amino acids | G |
Mass (Da) | 4646.95 |
Net charge | +6 |
Isoelectric point | 8.67 |
Basic residues | 7 |
Acidic residues | 1 |
Hydrophobic residues | 10 |
Polar residues | 24 |
Aliphatic residues | 4 |
Tiny residues | 14 |
Boman Index | -49.55 |
Hydropathy Index | -0.49 |
Aliphatic Index | 40 |
Instability Index | -0.48 (stable) |
Half Life |
Mammalian : 1.3 hour Yeast : 3 min E. coli : 2 min |
Extinction Coefficient | 14230 M-1 cm-1 |
Absorbance 280nm | 330.93 |
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