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(-) Description

Title :  CECROPIN A(1-8)-MAGAININ 2(1-12) L2 IN DODECYLPHOSPHOCHOLINE MICELLES
 
Authors :  D. Oh, S. Y. Shin, S. Lee, Y. Kim
Date :  16 May 00  (Deposition) - 14 Jun 00  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Helix-Turn-Helix, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Oh, S. Y. Shin, S. Lee, J. H. Kang, S. D. Kim, P. D. Ryu, K. S. Hahm, Y. Kim
Role Of The Hinge Region And The Tryptophan Residue In The Synthetic Antimicrobial Peptides, Cecropin A(1-8)-Magainin 2(1-12) And Its Analogues, On Their Antibiotic Activities And Structures.
Biochemistry V. 39 11855 2000
PubMed-ID: 11009597  |  Reference-DOI: 10.1021/BI000453G
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CECROPIN A-MAGAININ 2 HYBRID PEPTIDE
    Chains: A
    Engineered: YES
    Mutation: YES
    Other Details: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE FOR THIS PEPTIDE IS A HYBRID OF SEQUENCES WHICH OCCUR NATURALLY IN HYALOPHORA CECROPIA (CECROPIA MOTH) AND XENOPUS LAEVIS (AFRICAN CLAWED FROG)
    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:17 , PHE A:20BINDING SITE FOR RESIDUE NH2 A 21

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1F0G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1F0G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1F0G)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CECROPINPS00268 Cecropin family signature.CECA_HYACE28-36  1A:3-8

(-) Exons   (0, 0)

(no "Exon" information available for 1F0G)

(-) 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 CECA_HYACE | P01507 from UniProtKB/Swiss-Prot  Length:64

    Alignment length:36
                                    36        46        56      
           CECA_HYACE    27 KWKLFKKIEKVGQNIRDGIIKAGPAVAVVGQATQIA  62
               SCOP domains d1f0ga_ A :                          SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhh-.......--------------..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE -CECROPIN -------------------------- PROSITE
                 Transcript ------------------------------------ Transcript
                 1f0g A   1 KLKLFKKIG-IGKFLHS--------------AKKFx  21
                                    |-|     |  -         - |   |
                                    9 |    16             17   |
                                     10                       21-NH2


Chain A from PDB  Type:PROTEIN  Length:21
 aligned with MAGA_XENLA | P11006 from UniProtKB/Swiss-Prot  Length:303

    Alignment length:49
                                   240       250       260       270         
           MAGA_XENLA   231 KFGKAFVGEIMNSKRDAEAVGPEAFADEDLDEREVRGIGKFLHSAKKFG 279
               SCOP domains d1 f0g       a_     A                :            SCOP domains
               CATH domains ------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------- Pfam domains
         Sec.struct. author ..-.hh-------hh----hh----------------............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------- Transcript
                 1f0g A   1 KL-KLF-------KK----IG----------------IGKFLHSAKKFx  21
                             | | |   -   ||    8|        -       |12        |
                             2 3 5       6|    8|               10         21-NH2
                                          7     9
   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  (1, 1)

NMR Structure
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1F0G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1F0G)

(-) Gene Ontology  (9, 11)

NMR Structure(hide GO term definitions)
Chain A   (MAGA_XENLA | P11006)
biological process
    GO:0019835    cytolysis    The rupture of cell membranes and the loss of cytoplasm.
    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.
    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:0044179    hemolysis in other organism    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
    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: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.

Chain A   (CECA_HYACE | P01507)
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:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
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

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

UniProtKB/Swiss-Prot
        CECA_HYACE | P01507: 1d9j 1d9l 1d9m 1d9o 1d9p 1f0d 1f0e 1f0f 1f0h
        MAGA_XENLA | P11006: 1d9j 1d9l 1d9m 1d9o 1d9p 1dum 1f0d 1f0e 1f0f 1f0h 2lsa 2mag 4mgp 5cgn 5cgo

(-) Related Entries Specified in the PDB File

1d9j 1d9l 1d9m 1d9o 1d9p 1f0d 1f0e 1f0f 1f0h