Literature DB >> 18831035

Very short peptides with stable folds: building on the interrelationship of Trp/Trp, Trp/cation, and Trp/backbone-amide interaction geometries.

Lisa Eidenschink1, Brandon L Kier, Kelly N L Huggins, Niels H Andersen.   

Abstract

By combining a favorable turn sequence with a turn flanking n class="Chemical">Trp/Trp interaction and a C-terminal H-bonding interaction between a backbone amide and an i-2 Trp ring, a particularly stable (DeltaG(U) > 7 kJ/mol) truncated hairpin, Ac-WI-(D-Pro-D-Asn)-KWTG-NH(2), results. In this construct and others with a W-(4-residue turn)-W motif in severely truncated hairpins, the C-terminal Trp is the edge residue in a well-defined face-to-edge (FtE) aryl/aryl interaction. Longer hairpins and those with six-residue turns retain the reversed "edge-to-face" (EtF) Trp/Trp geometry first observed for the trpzip peptides. Mutational studies suggest that the W-(4-residue turn)-W interaction provides at least 3 kJ/mol of stabilization in excess of that due to the greater beta-propensity of Trp. The pi-cation, and Trp/Gly-H(N) interactions have been defined. The latter can give rise to >3 ppm upfield shifts for the Gly-H(N) in -WX(n)G- units both in turns (n = 2) and at the C-termini (n = 1) of hairpins. Terminal YTG units result in somewhat smaller shifts (extrapolated to 2 ppm for 100% folding). In peptides with both the EtF and FtE W/W interaction geometries, Trp to Tyr mutations indicate that Trp is the preferred "face" residue in aryl/aryl pairings, presumably because of its greater pi basicity.

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Year:  2009        PMID: 18831035      PMCID: PMC2656586          DOI: 10.1002/prot.22240

Source DB:  PubMed          Journal:  Proteins        ISSN: 0887-3585


  60 in total

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Journal:  Chem Rev       Date:  1997-08-05       Impact factor: 60.622

2.  Thermodynamic analysis of beta-hairpin-forming peptides from the thermal dependence of (1)H NMR chemical shifts.

Authors:  Clara M Santiveri; Jorge Santoro; Manuel Rico; M Angeles Jiménez
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3.  Prediction of strand pairing in antiparallel and parallel beta-sheets using information theory.

Authors:  Robert E Steward; Janet M Thornton
Journal:  Proteins       Date:  2002-08-01

4.  Enhanced hairpin stability through loop design: the case of the protein G B1 domain hairpin.

Authors:  R Matthew Fesinmeyer; F Michael Hudson; Niels H Andersen
Journal:  J Am Chem Soc       Date:  2004-06-16       Impact factor: 15.419

5.  Selective recognition of tryptophan through inhibition of intramolecular charge-transfer interactions in an aqueous medium.

Authors:  Mahesh Hariharan; Suneesh C Karunakaran; Danaboyina Ramaiah
Journal:  Org Lett       Date:  2007-02-01       Impact factor: 6.005

6.  NMR study and molecular dynamics simulations of optimized beta-hairpin fragments of protein G.

Authors:  Yun Wei; Beatrice M P Huyghues-Despointes; Jerry Tsai; J Martin Scholtz
Journal:  Proteins       Date:  2007-11-01

7.  Conformational investigation of designed short linear peptides able to fold into beta-hairpin structures in aqueous solution.

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Journal:  Fold Des       Date:  1996

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Authors:  L Serrano; M Bycroft; A R Fersht
Journal:  J Mol Biol       Date:  1991-03-20       Impact factor: 5.469

9.  Minimalist protein design: a beta-hairpin peptide that binds ssDNA.

Authors:  Sara M Butterfield; W John Cooper; Marcey L Waters
Journal:  J Am Chem Soc       Date:  2005-01-12       Impact factor: 15.419

10.  Stacking and T-shape competition in aromatic-aromatic amino acid interactions.

Authors:  Riccardo Chelli; Francesco Luigi Gervasio; Piero Procacci; Vincenzo Schettino
Journal:  J Am Chem Soc       Date:  2002-05-29       Impact factor: 15.419

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  23 in total

1.  Stabilizing capping motif for beta-hairpins and sheets.

Authors:  Brandon L Kier; Irene Shu; Lisa A Eidenschink; Niels H Andersen
Journal:  Proc Natl Acad Sci U S A       Date:  2010-05-19       Impact factor: 11.205

Review 2.  Implications of aromatic-aromatic interactions: From protein structures to peptide models.

Authors:  Kamlesh Madhusudan Makwana; Radhakrishnan Mahalakshmi
Journal:  Protein Sci       Date:  2015-10-07       Impact factor: 6.725

3.  Coupling of the non-amyloid-component (NAC) domain and the KTK(E/Q)GV repeats stabilize the α-synuclein fibrils.

Authors:  Liang Xu; Ruth Nussinov; Buyong Ma
Journal:  Eur J Med Chem       Date:  2016-01-25       Impact factor: 6.514

4.  13C structuring shifts for the analysis of model β-hairpins and β-sheets in proteins: diagnostic shifts appear only at the cross-strand H-bonded residues.

Authors:  Irene Shu; Michele Scian; James M Stewart; Brandon L Kier; Niels H Andersen
Journal:  J Biomol NMR       Date:  2013-07-14       Impact factor: 2.835

5.  Solution state structures of human pancreatic amylin and pramlintide.

Authors:  John R Cort; Zhihong Liu; Gregory M Lee; K N L Huggins; Susan Janes; Kathryn Prickett; Niels H Andersen
Journal:  Protein Eng Des Sel       Date:  2009-07-12       Impact factor: 1.650

6.  Optimization of a β-sheet-cap for long loop closure.

Authors:  Jordan M Anderson; Alexander A Shcherbakov; Brandon L Kier; Jackson Kellock; Irene Shu; Aimee L Byrne; Lisa A Eidenschink; Niels H Andersen
Journal:  Biopolymers       Date:  2017-03       Impact factor: 2.505

7.  Captides: rigid junctions between beta sheets and small molecules.

Authors:  Brandon L Kier; Niels H Andersen
Journal:  J Pept Sci       Date:  2014-06-06       Impact factor: 1.905

8.  The CLN025 decapeptide retains a β-hairpin conformation in urea and guanidinium chloride.

Authors:  Marcus P D Hatfield; Richard F Murphy; Sándor Lovas
Journal:  J Phys Chem B       Date:  2011-04-11       Impact factor: 2.991

9.  Mutational effects on the folding dynamics of a minimized hairpin.

Authors:  Michele Scian; Irene Shu; Katherine A Olsen; Khalil Hassam; Niels H Andersen
Journal:  Biochemistry       Date:  2013-04-05       Impact factor: 3.162

10.  VCD spectroscopic properties of the beta-hairpin forming miniprotein CLN025 in various solvents.

Authors:  Marcus P D Hatfield; Richard F Murphy; Sándor Lovas
Journal:  Biopolymers       Date:  2010-05       Impact factor: 2.505

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