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Science in China Series B: Chemistry

, Volume 47, Issue 5, pp 420–427 | Cite as

Penta-coordinated phosphorus structure analysis on kinases

  • Li Wu 
  • Ma Yuan 
  • Zhao Yufen 
Article

Abstract

In this paper, based on the known crystal structures of Square Pyramid (SP) and Trigonal Bipyramid (TBP) penta-coordinated phosphorus compounds containing amino acid side chains, such as amino, carboxyl, hydroxyl or thiol, a software designed to survey the P(5)-Structure of phosphorylated proteins. By this software, it was found that 382 of 398 phosphorus-related kinases (96%) from current PDB could go through the penta-coordinated phosphorus transition state or intermediate. For example, in protein 1HE8, amino group in Lysine16 was within 3.58 Å from the phosphorus atom, and a potential TBP structure consisting GNP2 and Nz could be overlapped with an authentic TBP with an RMSD value of 0.71 Å.

Keywords

penta-coordinated phosphorus structures kinases 

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Copyright information

© Science in China Press 2004

Authors and Affiliations

  1. 1.Key Lab of Bioorganic Phosphorus Chemistry and Chemical Biology of Ministry of Education, Department of Chemistry, School of Life SciencesTsinghua UniversityBeijingChina

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