1MMC

1H NMR STUDY OF THE SOLUTION STRUCTURE OF AC-AMP2


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 26 

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This is version 1.3 of the entry. See complete history


Literature

H NMR study of the solution structure of Ac-AMP2, a sugar binding antimicrobial protein isolated from Amaranthus caudatus.

Martins, J.C.Maes, D.Loris, R.Pepermans, H.A.Wyns, L.Willem, R.Verheyden, P.

(1996) J Mol Biol 258: 322-333

  • DOI: 10.1006/jmbi.1996.0253
  • Primary Citation of Related Structures:  
    1MMC

  • PubMed Abstract: 
  • The conformation in water of antimicrobial protein 2 from Amaranthus caudatus (Ac-AMP2) was determined using 1H NMR, DIANA and restrained molecular modeling. Ac-AMP2 is a 30 amino acid residue, lectin-like protein that specifically binds to chitin, a polymer of beta-1,4-N-acetyl-D-glucosamine ...

    The conformation in water of antimicrobial protein 2 from Amaranthus caudatus (Ac-AMP2) was determined using 1H NMR, DIANA and restrained molecular modeling. Ac-AMP2 is a 30 amino acid residue, lectin-like protein that specifically binds to chitin, a polymer of beta-1,4-N-acetyl-D-glucosamine. After sequence specific resonance assignments, a total of 198 distance restraints were collected from 2D NOESY buildup spectra at 500 MHz at pH 2, supplemented by a 2D NOESY spectrum at 600 MHz. The location of the three previously unassigned disulfide bridges was determined from preliminary DIANA structures, using a statistical analysis of intercystinyl distances. The solution structure of Ac-AMP2 is presented as a set of 26 DIANA structures, further refined by restrained molecular dynamics using a simulated annealing protocol in the AMBER force field, with a backbone r.m.s.d. for the well defined Glu3-Cys28 segment of 0.69(+/-0.12) angstroms. The main structural element is an antiparallel beta-sheet from Met13 to Lys23 including a betaI-turn over Gln17-Phel8 with a beta bulge at Gly19. In addition, a beta'I turn over Arg6-Gly7, a beta'III turn over Ser11-Gly12 and a helical turn from Gly24 to Cys28 are identified. This structure is very similar to the equivalent regions of the X-ray structure of wheat germ agglutinin and the NMR structure of hevein.


    Related Citations: 
    • 1H NMR Study of the Interaction of N,N',N''-Triacetyl Chitotriose with Ac-AMP2, a Sugar Binding Antimicrobial Protein Isolated from Amaranthus Caudatus
      Verheyden, P., Pletinckx, J., Maes, D., Pepermans, H.A.M., Wyns, L., Willem, R., Martins, J.C.
      (1995) FEBS Lett 370: 245
    • Antimicrobial Peptides from Amaranthus Caudatus Seeds with Sequence Homology to the Cysteine(Slash)Glycine Rich Domain of Chitin-Binding Proteins
      Broekaert, W.F., Marien, W., Terras, F.R.G., De Bolle, M.F.C., Proost, P., Van Damme, J., Dillen, L., Claeys, M., Rees, S.B., Vanderleyden, J., Cammue, B.P.A.
      (1992) Biochemistry 31: 4308

    Organizational Affiliation

    High Resolution NMR Centre, Vrije Universiteit Brussel, Belgium.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ANTIMICROBIAL PEPTIDE 2A30Amaranthus caudatusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P27275 (Amaranthus caudatus)
Explore P27275 
Go to UniProtKB:  P27275
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP27275
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 26 
  • OLDERADO: 1MMC Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-03-08
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-11-29
    Changes: Derived calculations, Other