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(-) Description

Title :  THE SOLUTION STRUCTURE OF THE NISIN-LIPID II COMPLEX
 
Authors :  S. -T. D. Hsu, E. Breukink, E. Tischenko, M. A. G. Lutters, B. De Kruijff R. Kaptein, A. M. J. J. Bonvin, N. A. J. Van Nuland
Date :  19 Nov 04  (Deposition) - 07 Mar 05  (Release) - 13 Jul 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  L,N  (20x)
NMR Structure *:  L,N  (1x)
Keywords :  Peptide-Antibiotic Complex, Lantibiotic, Antimicrobial, Bacteriocin, Thioester, Pore Formation, Pyrophosphate Cage, Food Preservative (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. -T. D. Hsu, E. Breukink, E. Tischenko, M. A. G. Lutters, B. De Kruijff, R. Kaptein, A. M. J. J. Bonvin, N. A. J. Van Nuland
The Nisin-Lipid Ii Complex Reveals A Pyrophosphate Cage That Provides A Blueprint For Novel Antibiotics
Nat. Struct. Mol. Biol. V. 11 963 2004
PubMed-ID: 15361862  |  Reference-DOI: 10.1038/NSMB830
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NISIN Z
    Chains: N
    Organism Scientific: LACTOCOCCUS LACTIS
    Organism Taxid: 1358
    Strain: NIZO 22186
 
Molecule 2 - NAG-MUB-ALA-FGA-LYS-DAL-DAL PEPTIDE
    Chains: L
    Organism Scientific: MONARTHROPALPUS FLAVUS
    Organism Taxid: 71816

 Structural Features

(-) Chains, Units

  12
NMR Structure (20x): LN
NMR Structure * (1x): LN

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 14)

NMR Structure (8, 14)
No.NameCountTypeFull Name
1DAL3Mod. Amino AcidD-ALANINE
2DBB4Mod. Amino AcidD-ALPHA-AMINOBUTYRIC ACID
3DBU1Mod. Amino Acid(2E)-2-AMINOBUT-2-ENOIC ACID
4DHA2Mod. Amino Acid2-AMINO-ACRYLIC ACID
5FGA1Mod. Amino AcidD-GAMMA GLUTAMIC ACID
6FPP1Ligand/IonFARNESYL DIPHOSPHATE
7MUB1Mod. Amino AcidN-ACETYLMURAMIC ACID
8NAG1Mod. Amino AcidN-ACETYL-D-GLUCOSAMINE
NMR Structure * (8, 14)
No.NameCountTypeFull Name
1DAL3Mod. Amino AcidD-ALANINE
2DBB4Mod. Amino AcidD-ALPHA-AMINOBUTYRIC ACID
3DBU1Mod. Amino Acid(2E)-2-AMINOBUT-2-ENOIC ACID
4DHA2Mod. Amino Acid2-AMINO-ACRYLIC ACID
5FGA1Mod. Amino AcidD-GAMMA GLUTAMIC ACID
6FPP1Ligand/IonFARNESYL DIPHOSPHATE
7MUB1Mod. Amino AcidN-ACETYLMURAMIC ACID
8NAG1Mod. Amino AcidN-ACETYL-D-GLUCOSAMINE

(-) Sites  (3, 3)

NMR Structure (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMUB L:2 , ILE N:1 , DBU N:2 , DAL N:3 , ILE N:4 , DHA N:5 , LEU N:6 , CYS N:7 , DBB N:8 , PRO N:9 , GLY N:10BINDING SITE FOR RESIDUE FPP N 35
2AC2SOFTWAREMUB L:2 , ALA L:3 , FGA L:4 , DAL L:6 , DAL L:7 , FPP N:35BINDING SITE FOR CHAIN N OF NISIN Z
3AC3SOFTWAREILE N:1 , DBU N:2 , ILE N:4 , GLY N:10 , DBB N:13 , GLY N:14 , FPP N:35BINDING SITE FOR CHAIN L OF NAG-MUB-ALA-FGA-LYS-DAL-DAL PEPTIDE

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1WCO)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1WCO)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_LANZ_LACLL_001 *N50HLANZ_LACLL  ---  ---NN27H
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
NMR Structure * (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_LANZ_LACLL_001 *N50HLANZ_LACLL  ---  ---NN27H
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1WCO)

(-) Exons   (0, 0)

(no "Exon" information available for 1WCO)

(-) 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 L from PDB  Type:PROTEIN  Length:7
                                      
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                  1wco L  1 xxAxKss  7
                            || | ||
                            || | ||
                            1-NAG||
                             2-MUB|
                               4-FGA
                                 6-DAL
                                  7-DAL


Chain N from PDB  Type:PROTEIN  Length:34
 aligned with LANZ_LACLL | P29559 from UniProtKB/Swiss-Prot  Length:57

    Alignment length:34
                                    33        43        53    
            LANZ_LACLL   24 ITSISLCTPGCKTGALMGCNMKTATCNCSIHVSK 57
               SCOP domains d1wcon1 N:1-34 Nisin               SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author .......hhhhhh..................... Sec.struct. author
                 SAPs(SNPs) --------------------------H------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                  1wco N  1 ItsIsLCtPGCKtGALMGCNMKtAtCNCSIHVsK 34
                             || |  |10  |     20  | |   30  | 
                             || |  |    |        23-DBB    33-DHA
                             2-DBU |    |          25-DBB     
                              3-DAL|    |                     
                                5-DHA   |                     
                                   8-DBB|                     
                                       13-DBB
   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 1WCO)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1WCO)

(-) Gene Ontology  (4, 4)

NMR Structure(hide GO term definitions)
Chain N   (LANZ_LACLL | P29559)
molecular function
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
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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  1wco
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 Related Entries

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(-) Related Entries Specified in the PDB File

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