Determination of orientation and adsorption-induced changes in the tertiary structure of proteins on material surfaces by chemical modification and peptide mapping

Acta Biomaterialia

Volumn 10, Issue 6, 2014, Pages 2404-2414

  Thyparambil, Aby A ^a   Wei, Yang ^a   Wu, Yonnie ^b   Latour, Robert A ^a  

^a Clemson University   (United States)

^b AUBURN UNIVERSITY   (United States)

Author keywords

Chemical labeling; Mass spectrometry; Protein structural change; Protein protein interaction; Protein surface interaction

Indexed keywords

ADSORPTION; CHEMICAL MODIFICATION; ESTERS; FUSED SILICA; GLASS; MAPPING; MASS SPECTROMETRY; PEPTIDES; SURFACE PROPERTIES;

AMINO-ACIDS; CHEMICAL LABELING; FUSED SILICA GLASS; HEN EGG WHITE LYSOZYME; MATERIAL'S SURFACE; PEPTIDE MAPPING; PROTEIN STRUCTURAL CHANGE; PROTEIN-PROTEIN INTERACTIONS; PROTEIN-SURFACE INTERACTIONS;

AMINO ACIDS;

AMINO ACID; POLY(METHYL METHACRYLATE); POLYETHYLENE; PROTEIN; SILICON DIOXIDE;

ADSORPTION; ARTICLE; CHEMICAL MODIFICATION; CIRCULAR DICHROISM; MASS SPECTROMETRY; ORIENTATION; PEPTIDE MAPPING; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN PROTEIN INTERACTION; PROTEIN SECONDARY STRUCTURE; PROTEIN STRUCTURE; SURFACE PROPERTY; CHEMISTRY; PROTEIN TERTIARY STRUCTURE;

ADSORPTION; CIRCULAR DICHROISM; PEPTIDE MAPPING; PROTEIN STRUCTURE, TERTIARY; PROTEINS;

EID: 84899650577     PISSN: 17427061     EISSN: 18787568     Source Type: Journal    
DOI: 10.1016/j.actbio.2014.01.027     Document Type: Article

References (30)

1. Latour RA. In: Biomaterials: protein-surface interactions. In: Bowlin GL, Wnek GE, editors. The encyclopedia of biomaterials and bioengineering. New York, NY: Informa Healthcare; 2008. p. 270-84.
2. Rabe M, Verdes D, Seeger S. Understanding protein adsorption phenomena at solid surfaces. Adv Colloid Interface Sci 2011;162:87-106.
3. Gray JJ. The interaction of proteins with solid surfaces. Curr Opin Struct Biol 2004;14:110-5.
4. Pelton JT, McLean LR. Spectroscopic methods for analysis of protein secondary structure. Anal Biochem 2000;277:167-76.
5. Xu JS, Bowden EF. Determination of the orientation of adsorbed cytochrome c on carboxyalkanethiol self-assembled monolayers by in situ differential modification. J Am Chem Soc 2006;128:6813-22.
6. Scott EA, Elbert DL. Mass spectrometric mapping of fibrinogen conformations at poly(ethylene terephthalate) interfaces. Biomaterials 2007;28:3904-17.
7. Fears KP, Sivaraman B, Powell GL, Wu Y, Latour RA. Probing the conformation and orientation of adsorbed enzymes using side-chain modification. Langmuir 2009;25:9319-27.
8. Mendoza VL, Vachet RW. Probing protein structure by amino acid-specific covalent labeling and mass spectrometry. Mass Spectrom Rev 2009;28: 785-815.
9. Yan X, Watson J, Ho PS, Deinzer ML. Mass spectrometric approaches using electrospray ionization charge states and hydrogen-deuterium exchange for determining protein structures and their conformational changes. Mol Cell Proteomics 2004;3:10-23.
10. Gromiha MM, Ahmad S, Suwa M. Application of residue distribution along the sequence for discriminating outer membrane proteins. Comput Biol Chem 2005;29:135-42.
11. Duncan MW, Aebersold R, Caprioli RM. The pros and cons of peptide-centric proteomics. Nat Biotechnol 2010;28:659-64.
12. Iwasaki Y, Nakano Y, Mochizuki K, Nomoto M, Takahashi Y, Ito R, et al. A new strategy for ionization enhancement by derivatization for mass spectrometry. J Chromatogr B 2011;879:1159-65.
13. Kelly SM, Jess TJ, Price NC. How to study proteins by circular dichroism. BBA Proteins Proteom 2005;1751:119-39.
14. Scopes RK. Measurement of protein by spectrophotometry at 205 nm. Anal Biochem 1974;59:277-82.
15. Anthis NJ, Clore GM. Sequence-specific determination of protein and peptide concentrations by absorbance at 205 nm. Protein Sci 2013;22:851-8.
16. Simonian MH. Spectrophotometric determination of protein concentration. Current protocols in cell biology. New York: Wiley; 2001.
17. Noble JE, Bailey MJA. Quantitation of protein. In: Richard RB, Murray PD, editors. Methods in enzymology. New York: Academic Press; 2009. p. 73-95.
18. Wei Y, Thyparambil AA, Latour RA. Quantification of the influence of protein- protein interactions on adsorbed protein structure and bioactivity. Colloids Surf B 2013;110:363-71.
19. Farkaš P, C?iz?ova A, Bekešova S, Bystrický S. Comparison of EDC and DMTMM efficiency in glycoconjugate preparation. Int J Biol Macromol 2013;60:325-7.
20. Leitner A, Amon S, Rizzi A, Lindner W. Use of the arginine-specific butane dione/phenylboronic acid tag for analysis of peptides and protein digests using matrix-assisted laser desorption/ionization mass spectrometry. Rapid Commun Mass Spectrom 2007;21:1321-30.
21. Suckau D, Mak M, Przybylski M. Protein surface topology-probing by selective chemical modification and mass-spectrometric peptide-mapping. Proc Natl Acad Sci USA 1992;89:5630-4.
22. Rappsilber J. The beginning of a beautiful friendship: cross-linking/mass spectrometry and modelling of proteins and multi-protein complexes. J Struct Biol 2011;173:530-40.
23. Lins L, Thomas A, Brasseur R. Analysis of accessible surface of residues in proteins. Protein Sci 2003;12:1406-17.
24. Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, et al. UCSF chimera - a visualization system for exploratory research and analysis. J Comput Chem 2004;25:1605-12.
25. Refaee M, Tezuka T, Akasaka K, Williamson MP. Pressure-dependent changes in the solution structure of hen egg-white lysozyme. J Mol Biol 2003;327:857-65.
26. Bernstein FC, Koetzle TF, Williams GJB, Meyer EF, Brice MD, Rodgers JR, et al. Protein data bank - computer-based archival file for macromolecular structures. J Mol Biol 1977;112:535-42.
27. Levitt M. Conformational preferences of amino-acids in globular proteins. Biochemistry (US) 1978;17:4277-84.
28. Fleming PJ, Richards FM. Protein packing: dependence on protein size, secondary structure and amino acid composition. J Mol Biol 2000;299: 487-98.
29. Redfield C, Dobson CM. Sequential proton NMR assignments and secondary structure of hen egg white lysozyme in solution. Biochemistry (US) 1988;27:122-36.
30. Hlady V, Buijs J. Protein adsorption on solid surfaces. Curr Opin Biotechnol 1996;7:72-7.