1CXR image
Entry Detail
PDB ID:
1CXR
Keywords:
Title:
AUTOMATED 2D NOESY ASSIGNMENT AND STRUCTURE CALCULATION OF CRAMBIN(S22/I25) WITH SELF-CORRECTING DISTANCE GEOMETRY BASED NOAH/DIAMOD PROGRAMS
Biological Source:
PDB Version:
Deposition Date:
1999-08-30
Release Date:
1999-09-07
Method Details:
Experimental Method:
Conformers Calculated:
40
Conformers Submitted:
10
Selection Criteria:
STRUCTURES WITH THE LEAST RESTRAINT VIOLATIONS,STRUCTURES WITH THE LOWEST ENERGY,TARGET FUNCTION
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:CRAMBIN
Mutations:S22P, I25L
Chain IDs:A
Chain Length:46
Number of Molecules:1
Biological Source:Crambe hispanica subsp. abyssinica
Ligand Molecules
Primary Citation
Automated 2D NOESY assignment and structure calculation of Crambin(S22/I25) with the self-correcting distance geometry based NOAH/DIAMOD programs.
J.Magn.Reson. 136 76 85 (1999)
PMID: 9887292 DOI: 10.1006/jmre.1998.1616

Abstact

The NOAH/DIAMOD program suite was used to automatically assign an experimental 2D NOESY spectrum of the 46 residue protein crambin(S22/I25), using feedback filtering and self-correcting distance geometry (SECODG). Automatically picked NOESY cross peaks were combined with 157 manually assigned peaks to start NOAH/DIAMOD calculations. At each cycle, DIAMOD was used to calculate an ensemble of 40 structures from these NOE distance constraints and random starting structures. The 10 structures with smallest target function values were analyzed by the structure-based filter, NOAH, and a new set of possible assignments was automatically generated based on chemical shifts and distance constraints violations. After 60 iterations and final energy minimization, the 10 structures with smallest target functions converged to 1.48 A for backbone atoms. Despite several missing chemical shifts, 426 of 613 NOE peaks were unambiguously assigned; 59 peaks were ambiguously assigned. The remaining 128 peaks picked automatically by FELIX are probably primarily noise peaks, with a few real peaks that were not assigned by NOAH due to the incomplete proton chemical shifts list.

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Primary Citation of related structures