Literature DB >> 20842396

How many hydrogen-bonded α-turns are possible?

Anette Schreiber1, Peter Schramm, Hans-Jörg Hofmann.   

Abstract

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.

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Year:  2010        PMID: 20842396     DOI: 10.1007/s00894-010-0830-5

Source DB:  PubMed          Journal:  J Mol Model        ISSN: 0948-5023            Impact factor:   1.810


  22 in total

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Authors:  Bhaskar Dasgupta; Lipika Pal; Gautam Basu; Pinak Chakrabarti
Journal:  Proteins       Date:  2004-05-01

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Journal:  J Mol Biol       Date:  1992-04-05       Impact factor: 5.469

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Authors:  C Ramakrishnan; D V Nataraj
Journal:  J Pept Sci       Date:  1998-06       Impact factor: 1.905

4.  Discovering protein secondary structures: classification and description of isolated alpha-turns.

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Journal:  Biopolymers       Date:  1996-06       Impact factor: 2.505

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Authors:  J F Leszczynski; G D Rose
Journal:  Science       Date:  1986-11-14       Impact factor: 47.728

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Authors:  J M Thornton; B L Sibanda; M S Edwards; D J Barlow
Journal:  Bioessays       Date:  1988 Feb-Mar       Impact factor: 4.345

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Journal:  Adv Protein Chem       Date:  1985

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Authors:  E G Hutchinson; J M Thornton
Journal:  Protein Sci       Date:  1994-12       Impact factor: 6.725

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Authors:  J S Richardson
Journal:  Adv Protein Chem       Date:  1981

10.  Design of a peptide hairpin containing a central three-residue loop.

Authors:  Rajkishor Rai; Srinivasarao Raghothama; Padmanabhan Balaram
Journal:  J Am Chem Soc       Date:  2006-03-01       Impact factor: 15.419

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