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(-) Description

Title :  SPATIAL STRUCTURE OF ANTIMICROBIAL PEPTIDE ARENICIN-2 DIMER IN DPC MICELLES
 
Authors :  Z. O. Shenkarev, K. I. Trunov, A. S. Paramonov, A. S. Arseniev
Date :  27 Jan 11  (Deposition) - 14 Dec 11  (Release) - 14 Dec 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (20x)
NMR Structure *:  A,B  (1x)
Keywords :  Arenicin, Oligomerization, Beta-Hairpin, Pore Forming Peptide, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. O. Shenkarev, S. V. Balandin, K. I. Trunov, A. S. Paramonov, S. V. Sukhanov, L. I. Barsukov, A. S. Arseniev, T. V. Ovchinnikova
Molecular Mechanism Of Action Of Beta-Hairpin Antimicrobial Peptide Arenicin: Oligomeric Structure In Dodecylphosphocholine Micelles And Pore Formation In Planar Lipid Bilayers
Biochemistry V. 50 6255 2011
PubMed-ID: 21627330  |  Reference-DOI: 10.1021/BI200746T

(-) Compounds

Molecule 1 - ARENICIN-2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET
    Expression System Vector Type: VECTOR
    Organism Common: LUGWORM
    Organism Scientific: ARENICOLA MARINA
    Organism Taxid: 6344

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2L8X)

(-) Sites  (0, 0)

(no "Site" information available for 2L8X)

(-) SS Bonds  (2, 2)

NMR Structure
No.Residues
1A:3 -A:20
2B:33 -B:50

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2L8X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2L8X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2L8X)

(-) Exons   (0, 0)

(no "Exon" information available for 2L8X)

(-) 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:21
 aligned with ANN2_AREMA | Q5SC59 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:21
                                   191       201 
           ANN2_AREMA   182 RWCVYAYVRIRGVLVRYRRCW 202
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author ..eeeeeeee..eee..eee. Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 2l8x A   1 RWCVYAYVRIRGVLVRYRRCW  21
                                    10        20 


Chain B from PDB  Type:PROTEIN  Length:21
 aligned with ANN2_AREMA | Q5SC59 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:21
                                   191       201 
           ANN2_AREMA   182 RWCVYAYVRIRGVLVRYRRCW 202
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author .eeeeeeeee..eeeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 2l8x B  31 RWCVYAYVRIRGVLVRYRRCW  51
                                    40        50
   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  (0, 0)

(no "SCOP Domain" information available for 2L8X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2L8X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2L8X)

(-) Gene Ontology  (4, 4)

NMR Structure(hide GO term definitions)
Chain A,B   (ANN2_AREMA | Q5SC59)
biological process
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
    GO:0050832    defense response to fungus    Reactions triggered in response to the presence of a fungus that act to protect the cell or organism.
    GO:0031640    killing of cells of other organism    Any process in an organism that results in the killing of cells of another organism, including in some cases the death of the other organism. Killing here refers to the induction of death in one cell by another cell, not cell-autonomous death due to internal or other environmental conditions.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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  2l8x
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 Related Entries

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

UniProtKB/Swiss-Prot
        ANN2_AREMA | Q5SC59: 2jni

(-) Related Entries Specified in the PDB File

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