1CCN

DIRECT NOE REFINEMENT OF CRAMBIN FROM 2D NMR DATA USING A SLOW-COOLING ANNEALING PROTOCOL


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Direct NOE refinement of biomolecular structures using 2D NMR data

Bonvin, A.M.J.J.Boelens, R.Kaptein, R.

(1991) J.Biomol.NMR 1: 305-309


  • PubMed Abstract: 
  • A set of computer programs called DINOSAUR has been developed, which allows the refinement of biomolecular structures directly from 2D NOE intensities. The NOE restraining potential implemented emphasises the weak intensities corresponding to larger ...

    A set of computer programs called DINOSAUR has been developed, which allows the refinement of biomolecular structures directly from 2D NOE intensities. The NOE restraining potential implemented emphasises the weak intensities corresponding to larger distances which are more likely to determine the three-dimensional structure. An approximation based on a two-spin approximation is proposed for the gradient of the NOE intensities instead of the exact solution which is extremely time-consuming. The DINOSAUR routines have been implemented in various refinement programs (Distance bound Driven Dynamics, Molecular Dynamics and Energy Minimisation) and tested on an eight-residue model peptide.


    Related Citations: 
    • 1H NMR Characterization of Two Crambin Species
      Vermeulen, J.A.W.H.,Lamerichs, R.M.J.M.,Berliner, L.J.,Demarco, A.,Llinas, M.,Boelens, R.,Alleman, J.,Kaptein, R.
      (1987) FEBS Lett. 219: 426
    • Secondary Structure and Hydrogen Bonding of Crambin in Solution
      Lamerichs, R.M.J.N.,Berliner, L.J.,Boelens, R.,Demarco, A.,Llinas, M.,Kaptein, R.
      (1988) Eur.J.Biochem. 171: 307
    • 2D NMR Studies of Biomolecules: Protein Structure and Protein-DNA Interactions
      Lamerichs, R.M.J.M.
      (1989) Thesis --: --
    • Structure Determination by NMR-Application to Crambin
      Rullmann, J.A.C.,Bonvin, A.M.J.J.,Boelens, R.,Kaptein, R.
      (1992) COMPUTATION OF BIOMOLECULAR STRUCTURES; ACHIEVEMENTS PROBLEMS, AND PERSPECTIVES --: 1
    • "Ensemble" Iterative Relaxation Matrix Approach: A New NMR Refinement Protocol Applied to the Solution Structure of Crambin
      Bonvin, A.M.J.J.,Rullmann, J.A.C.,Lamerichs, R.M.J.N.,Boelens, R.,Kaptein, R.
      (1993) Proteins 15: 385


    Organizational Affiliation

    Bijvoet Center, University of Utrecht, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRAMBIN
A
46Crambe hispanica subsp. abyssinicaGene Names: THI2
Find proteins for P01542 (Crambe hispanica subsp. abyssinica)
Go to UniProtKB:  P01542
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other