Literature DB >> 19383454

Solution- and adsorbed-state structural ensembles predicted for the statherin-hydroxyapatite system.

David L Masica1, Jeffrey J Gray.   

Abstract

We have developed a multiscale structure prediction technique to study solution- and adsorbed-state ensembles of biomineralization proteins. The algorithm employs a Metropolis Monte Carlo-plus-minimization strategy that varies all torsional and rigid-body protein degrees of freedom. We applied the technique to fold statherin, starting from a fully extended peptide chain in solution, in the presence of hydroxyapatite (HAp) (001), (010), and (100) monoclinic crystals. Blind (unbiased) predictions capture experimentally observed macroscopic and high-resolution structural features and show minimal statherin structural change upon adsorption. The dominant structural difference between solution and adsorbed states is an experimentally observed folding event in statherin's helical binding domain. Whereas predicted statherin conformers vary slightly at three different HAp crystal faces, geometric and chemical similarities of the surfaces allow structurally promiscuous binding. Finally, we compare blind predictions with those obtained from simulation biased to satisfy all previously published solid-state NMR (ssNMR) distance and angle measurements (acquired from HAp-adsorbed statherin). Atomic clashes in these structures suggest a plausible, alternative interpretation of some ssNMR measurements as intermolecular rather than intramolecular. This work demonstrates that a combination of ssNMR and structure prediction could effectively determine high-resolution protein structures at biomineral interfaces.

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Year:  2009        PMID: 19383454      PMCID: PMC2718269          DOI: 10.1016/j.bpj.2009.01.033

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  51 in total

1.  Protein-protein docking with simultaneous optimization of rigid-body displacement and side-chain conformations.

Authors:  Jeffrey J Gray; Stewart Moughon; Chu Wang; Ora Schueler-Furman; Brian Kuhlman; Carol A Rohl; David Baker
Journal:  J Mol Biol       Date:  2003-08-01       Impact factor: 5.469

2.  Toward high-resolution de novo structure prediction for small proteins.

Authors:  Philip Bradley; Kira M S Misura; David Baker
Journal:  Science       Date:  2005-09-16       Impact factor: 47.728

3.  Molecular simulation of protein adsorption and desorption on hydroxyapatite surfaces.

Authors:  Jia-Wei Shen; Tao Wu; Qi Wang; Hai-Hua Pan
Journal:  Biomaterials       Date:  2007-11-07       Impact factor: 12.479

Review 4.  Helix capping.

Authors:  R Aurora; G D Rose
Journal:  Protein Sci       Date:  1998-01       Impact factor: 6.725

5.  Folding of the C-terminal bacterial binding domain in statherin upon adsorption onto hydroxyapatite crystals.

Authors:  Gil Goobes; Rivka Goobes; Ora Schueler-Furman; David Baker; Patrick S Stayton; Gary P Drobny
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-23       Impact factor: 11.205

6.  Ice-binding structure and mechanism of an antifreeze protein from winter flounder.

Authors:  F Sicheri; D S Yang
Journal:  Nature       Date:  1995-06-01       Impact factor: 49.962

7.  The COOH terminus of the amelogenin, LRAP, is oriented next to the hydroxyapatite surface.

Authors:  Wendy J Shaw; Allison A Campbell; Michael L Paine; Malcolm L Snead
Journal:  J Biol Chem       Date:  2004-08-05       Impact factor: 5.157

8.  Mesoscopic analysis of conformational and entropic contributions to nonspecific adsorption of HP copolymer chains using dynamic Monte Carlo simulations.

Authors:  Susan M Liu; Charles A Haynes
Journal:  J Colloid Interface Sci       Date:  2004-07-15       Impact factor: 8.128

9.  Adsorption of a statherin peptide fragment on the surface of nanocrystallites of hydroxyapatite.

Authors:  Peng-Huan Chen; Yao-Hung Tseng; Yun Mou; Yi-Ling Tsai; Syuan-Ming Guo; Shing-Jong Huang; Steve S-F Yu; Jerry C C Chan
Journal:  J Am Chem Soc       Date:  2008-02-12       Impact factor: 15.419

10.  Bone recognition mechanism of porcine osteocalcin from crystal structure.

Authors:  Quyen Q Hoang; Frank Sicheri; Andrew J Howard; Daniel S C Yang
Journal:  Nature       Date:  2003-10-30       Impact factor: 49.962

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  15 in total

1.  The Role of Basic Amino Acids in the Molecular Recognition of Hydroxyapatite by Statherin using Solid State NMR.

Authors:  Moise Ndao; Jason T Ash; Patrick S Stayton; Gary P Drobny
Journal:  Surf Sci       Date:  2010-08-15       Impact factor: 1.942

2.  Cell and Material-Specific Phage Display Peptides Increase iPS-MSC Mediated Bone and Vasculature Formation In Vivo.

Authors:  Harsha Ramaraju; David H Kohn
Journal:  Adv Healthc Mater       Date:  2019-03-05       Impact factor: 9.933

3.  Sum frequency generation and solid-state NMR study of the structure, orientation, and dynamics of polystyrene-adsorbed peptides.

Authors:  Tobias Weidner; Nicholas F Breen; Kun Li; Gary P Drobny; David G Castner
Journal:  Proc Natl Acad Sci U S A       Date:  2010-07-13       Impact factor: 11.205

4.  Toward a structure determination method for biomineral-associated protein using combined solid- state NMR and computational structure prediction.

Authors:  David L Masica; Jason T Ash; Moise Ndao; Gary P Drobny; Jeffrey J Gray
Journal:  Structure       Date:  2010-12-08       Impact factor: 5.006

5.  Solid-State NMR and MD Study of the Structure of the Statherin Mutant SNa15 on Mineral Surfaces.

Authors:  Erika L Buckle; Arushi Prakash; Massimiliano Bonomi; Janani Sampath; Jim Pfaendtner; Gary P Drobny
Journal:  J Am Chem Soc       Date:  2019-01-24       Impact factor: 15.419

6.  Partial high-resolution structure of phosphorylated and non-phosphorylated leucine-rich amelogenin protein adsorbed to hydroxyapatite.

Authors:  David L Masica; Jeffrey J Gray; Wendy J Shaw
Journal:  J Phys Chem C Nanomater Interfaces       Date:  2011-07-21       Impact factor: 4.126

7.  Roles of electrostatics and conformation in protein-crystal interactions.

Authors:  Paul V Azzopardi; Jason O'Young; Gilles Lajoie; Mikko Karttunen; Harvey A Goldberg; Graeme K Hunter
Journal:  PLoS One       Date:  2010-02-19       Impact factor: 3.240

8.  Harnessing biomolecules for bioinspired dental biomaterials.

Authors:  Nicholas G Fischer; Eliseu A Münchow; Candan Tamerler; Marco C Bottino; Conrado Aparicio
Journal:  J Mater Chem B       Date:  2020-08-04       Impact factor: 6.331

9.  Neutron reflectometry studies of the adsorbed structure of the amelogenin, LRAP.

Authors:  Barbara J Tarasevich; Ursula Perez-Salas; David L Masica; John Philo; Paul Kienzle; Susan Krueger; Charles F Majkrzak; Jeffrey L Gray; Wendy J Shaw
Journal:  J Phys Chem B       Date:  2013-03-12       Impact factor: 2.991

10.  Exploiting fluorescence resonance energy transfer to probe structural changes in a macromolecule during adsorption and incorporation into a growing biomineral crystal.

Authors:  Lara A Touryan; Gretchen Baneyx; Viola Vogel
Journal:  Colloids Surf B Biointerfaces       Date:  2009-07-14       Impact factor: 5.268

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