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  PROCHECK analyses

The PROCHECK analyses provide an idea of the stereochemical quality of all protein chains in a given PDB structure. They highlight regions of the proteins which appear to have unusual geometry and provide an overall assessment of the structure as a whole.

The analyses can be generated by clicking on the PROCHECK button at the top of the PROCHECK summary page; you can get to this page from the PDBsum page of the structure in question either by clicking on PROCHECK in the index on the left hand side of the page, or else by clicking on the Ramamchandran plot on the right.

Below are described the various plots and text outputs generated by PROCHECK. Note that, if the "Distorted Geometry" plot is absent, then the structure contains no outliers of the type shown on this plot.

PDBsum uses version 3.6.2 of PROCHECK.

Further details can be found at:

http://www.ebi.ac.uk/thornton-srv/software/PROCHECK/

Plot descriptions

1. Main Ramachandran plot
2. All-residue Ramachandran plots
3. All-residue chi1-chi2 plots
4. Main-chain parameters
5. Side-chain parameters
6. Residue properties plot
7. Main-chain bond lengths
8. Main-chain bond angles
9. RMS distances from planarity
10. Distorted geometry

Print-out

Residue-by-residue listing

3D view

Torsion angle G-factors in 3D

Miscellaneous

G-factors

Reference

Laskowski R A, MacArthur M W, Moss D S and Thornton J M (1993). PROCHECK: a program to check the stereochemical quality of protein structures. J. Appl. Cryst., 26, 283-291.

  Roman Laskowski Sep 1995 spacer

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