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(-) Description

Title :  STRUCTURE AND MEMBRANE INTERACTIONS OF THE ANTIBIOTIC PEPTIDE DERMADISTINCTIN K BY MULTIDIMENSIONAL SOLUTION AND ORIENTED 15N AND 31P SOLID-STATE NMR SPECTROSCOPY
 
Authors :  C. M. Moraes, R. M. Verly, J. M. Resende, C. Aisenbrey, M. P. Bemquerer, D. Pilo-Veloso, A. Valente, F. C. L. Almeida, B. Bechinger
Date :  07 Oct 08  (Deposition) - 14 Apr 09  (Release) - 14 Apr 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Amphipathic Alpha-Helix, Membrane Protein Structure Determination, C-Terminal Carboxyamidation, Antimicrobial Protein, Amphibian Defense Peptide, Antibiotic, Antimicrobial, Secreted (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. M. Verly, C. M. De Moraes, J. M. Resende, C. Aisenbrey, M. P. Bemquerer, D. Pilo-Veloso, A. P. Valente, F. C. L. Almeida, B. Bechinger
Structure And Membrane Interactions Of The Antibiotic Peptide Dermadistinctin K By Multidimensional Solution And Oriented 15N And 31P Solid-State Nmr Spectroscopy.
Biophys. J. V. 96 2194 2009
PubMed-ID: 19289046  |  Reference-DOI: 10.1016/J.BPJ.2008.11.063
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DERMADISTINCTIN-K
    Chains: A
    Engineered: YES
    Other Details: THE PEPTIDE WAS PREPARED BY SOLID-PHASE SYNTHESIS USING FMOC CHEMISTRY
    Synonym: DD K
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:32 , VAL A:33BINDING SITE FOR RESIDUE NH2 A 34

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2K9B)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2K9B)

(-) 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
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Chain A from PDB  Type:PROTEIN  Length:34
 aligned with DDSK_PHYDS | P83638 from UniProtKB/Swiss-Prot  Length:33

    Alignment length:34
                                                           33     
                                    10        20        30  | 
            DDSK_PHYDS    1 GLWSKIKAAGKEAAKAAAKAAGKAALNAVSEAV-  -
               SCOP domains ---------------------------------- SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                  2k9b A  1 GLWSKIKAAGKEAAKAAAKAAGKAALNAVSEAVx 34
                                    10        20        30   |
                                                            34-NH2
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 2K9B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2K9B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2K9B)

(-) Gene Ontology  (3, 3)

NMR Structure(hide GO term definitions)
Chain A   (DDSK_PHYDS | P83638)
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
    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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 Related Entries

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UniProtKB/Swiss-Prot
        DDSK_PHYDS | P83638: 2jx6

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