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(-) Description

Title :  THREE-DIMENSIONAL STRUCTURE IN LIPID MICELLES OF THE PEDIOCIN-LIKE ANTIMICROBIAL PEPTIDE SAKACIN P.
 
Authors :  M. Uteng, H. H. Hauge, P. R. Markwick, G. Fimland, D. Mantzilas, J. Nissen-Meyer, C. Muhle-Goll
Date :  25 Apr 03  (Deposition) - 22 Sep 03  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (10x)
Keywords :  Pediocin-Like Bacteriocins, Antimicrobial Peptides, Sakacin P, Antibiotic (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Uteng, H. H. Hauge, P. R. Markwick, G. Fimland, D. Mantzilas, J. Nissen-Meyer, C. Muhle-Goll
Three-Dimensional Structure In Lipid Micelles Of The Pediocin-Like Antimicrobial Peptide Sakacin P And A Sakacin P Variant That Is Structurally Stabilized By An Inserted C-Terminal Disulfide Bridge
Biochemistry V. 42 11417 2003
PubMed-ID: 14516192  |  Reference-DOI: 10.1021/BI034572I

(-) Compounds

Molecule 1 - BACTERIOCIN SAKACIN P
    Chains: A
    Engineered: YES
    Expression System: LACTOBACILLUS SAKE
    Expression System Plasmid: PMLS114
    Expression System Strain: LB790
    Expression System Taxid: 1599
    Expression System Variant: LB790/PMLS114
    Expression System Vector: PMG36E
    Organism Scientific: LACTOBACILLUS SAKE
    Organism Taxid: 1599
    Strain: LB790
    Synonym: SAKACIN 674
    Variant: LB790/PMLS114

 Structural Features

(-) Chains, Units

  
NMR Structure (10x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OG7)

(-) Sites  (0, 0)

(no "Site" information available for 1OG7)

(-) SS Bonds  (1, 1)

NMR Structure
No.Residues
1A:9 -A:14

(-) Cis Peptide Bonds  (3, 4)

NMR Structure
No.ModelResidues
12, 7Asn A:5 -Gly A:6
24Tyr A:3 -Gly A:4
37Gly A:36 -Gly A:37

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OG7)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BACTERIOCIN_IIAPS60030 Bacteriocin class IIa family signature.SAKP_LACSK21-32  1A:3-14

(-) Exons   (0, 0)

(no "Exon" information available for 1OG7)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:43
 aligned with SAKP_LACSK | P35618 from UniProtKB/Swiss-Prot  Length:61

    Alignment length:43
                                    28        38        48        58   
            SAKP_LACSK   19 KYYGNGVHCGKHSCTVDWGTAIGNIGNNAAANWATGGNAGWNK 61
               SCOP domains d1og7a_ A: Sakacin P                        SCOP domains
               CATH domains ------------------------------------------- CATH domains
               Pfam domains Bacteriocin_II-1og7A01 A:1-36       ------- Pfam domains
         Sec.struct. author .eee..ee.........hhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE --BACTERIOCIN_----------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                  1og7 A  1 KYYGNGVHCGKHSCTVDWGTAIGNIGNNAAANWATGGNAGWNK 43
                                    10        20        30        40
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1OG7)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: Bacteriocin_II] (6)

(-) Gene Ontology  (3, 3)

NMR Structure(hide GO term definitions)
Chain A   (SAKP_LACSK | P35618)
biological process
    GO:0019835    cytolysis    The rupture of cell membranes and the loss of cytoplasm.
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  Cis Peptide Bonds
    Asn A:5 - Gly A:6   [ RasMol ]  
    Gly A:36 - Gly A:37   [ RasMol ]  
    Tyr A:3 - Gly A:4   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        SAKP_LACSK | P35618: 1ohm 1ohn

(-) Related Entries Specified in the PDB File

1ohm SAKACIN P VARIANT THAT IS STRUCTURALLY STABILIZED BY AN INSERTED C-TERMINAL DISULFIDE BRIDGE.
1ohn THREE-DIMENSIONAL STRUCTURE IN LIPID MICELLES OF THE PEDIOCIN-LIKE ANTIMICROBIAL PEPTIDE SAKACIN P.