Institute of Biochemistry, Faculty of Biosciences, Pharmacy, and Psychology, University of Leipzig, Leipzig, Germany.
J Mol Model. 2011 Jun;17(6):1393-400. doi: 10.1007/s00894-010-0830-5. Epub 2010 Sep 15.
The formation of α-turns is a possibility to reverse the direction of peptide sequences via five amino acids. In this paper, a systematic conformational analysis was performed to find the possible isolated α-turns with a hydrogen bond between the first and fifth amino acid employing the methods of ab initio MO theory in vacuum (HF/6-31G*, B3LYP/6-311 + G*) and in solution (CPCM/HF/6-31G*). Only few α-turn structures with glycine and alanine backbones fulfill the geometry criteria for the i←(i + 4) hydrogen bond satisfactorily. The most stable representatives agree with structures found in the Protein Data Bank. There is a general tendency to form additional hydrogen bonds for smaller pseudocycles corresponding to β- and γ-turns with better hydrogen bond geometries. Sometimes, this competition weakens or even destroys the i←(i + 4) hydrogen bond leading to very stable double β-turn structures. This is also the reason why an "ideal" α-turn with three central amino acids having the perfect backbone angle values of an α-helix could not be localized. There are numerous hints for stable α-turns with a distance between the C(α)-atoms of the first and fifth amino acid smaller than 6-7 Å, but without an i←(i + 4) hydrogen bond.
α-转角的形成是通过五个氨基酸来反转肽序列方向的一种可能性。在本文中,我们采用从头算 MO 理论在真空(HF/6-31G*,B3LYP/6-311 + G*)和溶液(CPCM/HF/6-31G*)中的方法,对可能存在于第一个和第五个氨基酸之间氢键的孤立α-转角进行了系统的构象分析。只有少数具有甘氨酸和丙氨酸骨架的α-转角结构能够很好地满足 i←(i + 4)氢键的几何标准。最稳定的代表结构与蛋白质数据库中发现的结构一致。对于较小的伪环(对应于β-和γ-转角),形成额外氢键的趋势更为明显,其氢键几何形状更好。有时,这种竞争会削弱甚至破坏 i←(i + 4)氢键,导致非常稳定的双β-转角结构。这也是为什么无法定位具有完美α-螺旋中心氨基酸的完美骨架角度值的“理想”三氨基酸α-转角的原因。存在许多具有稳定α-转角的迹象,它们的第一个和第五个氨基酸的 C(α)-原子之间的距离小于 6-7 Å,但没有 i←(i + 4)氢键。