1 / 7

Garnier-Osguthorpe-Robson

Garnier-Osguthorpe-Robson. GOR Method. Article. Analysis of the Accuracy and Implications of Simple Methods for Predicting the Secondary Structure of Globular Proteins J. Garnier, D.J. Osguthorpe and B Robson Journal of Molecular Biology (1978); 120 , 97-120.

inez
Download Presentation

Garnier-Osguthorpe-Robson

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Garnier-Osguthorpe-Robson GOR Method

  2. Article Analysis of the Accuracy and Implications of Simple Methods for Predicting the Secondary Structure of Globular Proteins J. Garnier, D.J. Osguthorpe and B Robson Journal of Molecular Biology (1978); 120, 97-120

  3. Predict secondary structure from aa-sequence alone Simple predictive algorithm Four-state predictions More additional information enhances prediction Introduction

  4. Predict conformational state of each residue in a sequence I(Sj; R1, R2, … Rlast) Effect of one residue affects conformation up to eight residues distant 20 X 4 X 17 parameters Theory

  5. Method • Each amino acid is predicted to exist in one of four states: 1) H = helix 2) C = coil 3) T = turn 4) E = extended chain (beta-strand) • Each residue is given a score based upon the nature and positions of the ± 8th residues according to previously calculated tables. • The residue receives a score for each of the conformational possibilities and the highest one gives the prediction.

  6. Example Arg-Gly-Ser-Ala-Lys-Cys-Trp-Tyr-Pro-Ala-Val-Gly-Glu-Lys-Asp-Met-Ile The Pro residue would receive the following scores based on the previously calculated tables:

  7. Better predictions Long-range interactions 5 to 10% improvement with homology studies Only 63% correct Depends on database the GOR method is an approximation Advantages/Disadvantages

More Related