Taylor William R, Xiao Bing, Gamblin Steven J, Lin Kuang
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK.
Comput Biol Chem. 2003 Feb;27(1):11-5. doi: 10.1016/s1476-9271(02)00099-3.
A novel knot found in the SET domain is examined in the light of five recent crystal structures and their descriptions in the literature. Using the algorithm of Taylor it was established that the backbone chain does not form a true knot. However, only two crosslinks corresponding to hydrogen-bonds were needed to form a knotted structure. Such loosely knotted structures formed by hydrogen-bonded crosslinks were assessed as lying between covalent crosslinks (such as disulphide bonds) and threaded-loops which are formed by close (unbonded) contacts between different parts of the chain. The term pseudo-knot was introduced (from the RNA field) to distinguish hydrogen-bonded 'knots'.
根据最近的五个晶体结构及其文献描述，对SET结构域中发现的一种新型纽结进行了研究。使用泰勒算法确定主链不形成真正的纽结。然而，仅需要两个对应于氢键的交联来形成纽结结构。由氢键交联形成的这种松散纽结结构被评估为介于共价交联（如二硫键）和由链的不同部分之间紧密（非键合）接触形成的穿线环之间。引入了（来自RNA领域的）假纽结一词来区分氢键“纽结”。
