Detecting molecular fingerprints in single molecule force spectroscopy using pattern recognition

被引:11
作者
Dietz, Hendrik [1 ]
Rief, Matthias [1 ]
机构
[1] Tech Univ Munich, Phys Dept E22, D-85748 Garching, Germany
来源
JAPANESE JOURNAL OF APPLIED PHYSICS PART 1-REGULAR PAPERS BRIEF COMMUNICATIONS & REVIEW PAPERS | 2007年 / 46卷 / 8B期
关键词
single molecule; protein mechanics; force spectroscopy; AFM; pattern recognition; GFP;
D O I
10.1143/JJAP.46.5540
中图分类号
O59 [应用物理学];
学科分类号
摘要
Single molecule force spectroscopy has given experimental access to the mechanical properties of protein molecules. Typically, less than 1% of the experimental recordings reflect true single molecule events due to abundant surface and multiple-molecule interactions. A key issue in single molecule force spectroscopy is thus to identify the characteristic mechanical '' fingerprint '' of a specific protein in noisy data sets. Here, we present an objective pattern recognition algorithm that is able to identify fingerprints in such noisy data sets.
引用
收藏
页码:5540 / 5542
页数:3
相关论文
共 19 条
[1]   The importance of being knotted: effects of the C-terminal knot structure on enzymatic and mechanical properties of bovine carbonic anhydrase II [J].
Alam, MT ;
Yamada, T ;
Carlsson, U ;
Ikai, A .
FEBS LETTERS, 2002, 519 (1-3) :35-40
[2]   Mechanical processes in biochemistry [J].
Bustamante, C ;
Chemla, YR ;
Forde, NR ;
Izhaky, D .
ANNUAL REVIEW OF BIOCHEMISTRY, 2004, 73 :705-748
[3]   Mechanical and chemical unfolding of a single protein: A comparison [J].
Carrion-Vazquez, M ;
Oberhauser, AF ;
Fowler, SB ;
Marszalek, PE ;
Broedel, SE ;
Clarke, J ;
Fernandez, JM .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1999, 96 (07) :3694-3699
[4]   Mechanical design of proteins-studied by single-molecule force spectroscopy and protein engineering [J].
Carrion-Vazquez, M ;
Oberhauser, AF ;
Fisher, TE ;
Marszalek, PE ;
Li, HB ;
Fernandez, JM .
PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY, 2000, 74 (1-2) :63-91
[5]   Protein structure by mechanical triangulation [J].
Dietz, H ;
Rief, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (05) :1244-1247
[6]   Exploring the energy landscape of GFP by single-molecule mechanical experiments [J].
Dietz, H ;
Rief, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (46) :16192-16197
[7]   Cysteine engineering of polyproteins for single-molecule force spectroscopy [J].
Dietz, Hendrik ;
Bertz, Morten ;
Schlierf, Michael ;
Berkemeier, Felix ;
Bornschloegl, Thomas ;
Junker, Jan Philipp ;
Rief, Matthias .
NATURE PROTOCOLS, 2006, 1 (01) :80-84
[8]   Anisotropic deformation response of single protein molecules [J].
Dietz, Hendrik ;
Berkemeier, Felix ;
Bertz, Morten ;
Rief, Matthias .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (34) :12724-12728
[9]   Sacrificial bonds and hidden length: Unraveling molecular mesostructures in tough materials [J].
Fantner, GE ;
Oroudjev, E ;
Schitter, G ;
Golde, LS ;
Thurner, P ;
Finch, MM ;
Turner, P ;
Gutsmann, T ;
Morse, DE ;
Hansma, H ;
Hansma, PK .
BIOPHYSICAL JOURNAL, 2006, 90 (04) :1411-1418
[10]   Unfolding mechanics of holo- and apocalmodulin studied by the atomic force microscope [J].
Hertadi, R ;
Ikai, A .
PROTEIN SCIENCE, 2002, 11 (06) :1532-1538