Chinese Journal of Magnetic Resonance ›› 1995, Vol. 12 ›› Issue (2): 127-134.

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AN ALGORITHM FOR CALCULATING PROTEINSOLUTION C ONFORMATIONS

Lin Donghai, Shen Lianfang, Miao Xijia, Mao Xian, Ye Chaohui   

  1. State Key Laboratory of Magnetic Resonanee and Atomic and Molecular Pbysica, Wuhan Institute of Pbysies, Tbc Chinesc Academy of Scieces, Wuhan 430071
  • Received:1994-07-20 Revised:1994-08-08 Published:1995-04-05 Online:2018-01-17

Abstract: An algorithm was developed to calculate protein solution conforniations from 2D NOESY intensities. With the complete relaxation matrix analysis program MARDIGRAS the H-H atom distance constraints are evaluated. With the distance geometry program DISMAN the three dimensional structures of proteins are calculated which are refined further by the restrained molecular dynamics program r-MD and the energy rninimization program r-EM. With the CORMA program the NOESY intensities of the calculated structures are simulated to compare with the experimental NOESY intensities. Through a series of calculations and refinements the protein conformations arc obtained finally. The algorithm has been tested with the crystal structure of BPTI tresidues 1~30) and shown to be successful and practical.

Key words: NMR, Protein solution confoimations, Calculation and refinement of structures