Slow ring flips in aromatic cluster of GB1 studied by aromatic 13C relaxation dispersion methods

被引:13
作者
Dreydoppel, Matthias [1 ]
Raum, Heiner N. [1 ]
Weininger, Ulrich [1 ]
机构
[1] Martin Luther Univ Halle Wittenberg, Inst Phys, Biophys, D-06120 Halle, Saale, Germany
关键词
Aromatic interaction; NMR spectroscopy; Protein dynamics; Protein breathing; Protein stability; PANCREATIC TRYPSIN-INHIBITOR; AMINO-ACID-RESIDUES; SIDE-CHAINS; MAGNETIC-RESONANCE; DYNAMICS; PROTEINS; PRESSURE; MECHANISM; VOLUMES; PACKING;
D O I
10.1007/s10858-020-00303-3
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Ring flips of phenylalanine and tyrosine are a hallmark of protein dynamics. They report on transient breathing motions of proteins. In addition, flip rates also depend on stabilizing interactions in the ground state, like aromatic stacking or cation-pi interaction. So far, experimental studies of ring flips have almost exclusively been performed on aromatic rings without stabilizing interactions. Here we investigate ring flip dynamics of Phe and Tyr in the aromatic cluster in GB1. We found that all four residues of the cluster, Y3, F30, Y45 and F52, display slow ring flips. Interestingly, F52, the central residue of the cluster, which makes aromatic contacts with all three others, is flipping significantly faster, while the other rings are flipping with the same rates within margin of error. Determined activation enthalpies and activation volumes of these processes are in the same range of other reported ring flips of single aromatic rings. There is no correlation of the number of aromatic stacking interactions to the activation enthalpy, and no correlation of the ring's extent of burying to the activation volume. Because of these findings, we speculate that F52 is undergoing concerted ring flips with each of the other rings.
引用
收藏
页码:183 / 191
页数:9
相关论文
共 35 条
  • [1] PINT: a software for integration of peak volumes and extraction of relaxation rates
    Ahlner, Alexandra
    Carlsson, Mats
    Jonsson, Bengt-Harald
    Lundstrom, Patrik
    [J]. JOURNAL OF BIOMOLECULAR NMR, 2013, 56 (03) : 191 - 202
  • [2] [Anonymous], 2002, Numerical Recipes in C++: The Art of Scientific Computing
  • [3] AROMATIC-AROMATIC INTERACTION - A MECHANISM OF PROTEIN-STRUCTURE STABILIZATION
    BURLEY, SK
    PETSKO, GA
    [J]. SCIENCE, 1985, 229 (4708) : 23 - 28
  • [4] ELECTROSTATIC INTERACTIONS IN AROMATIC OLIGOPEPTIDES CONTRIBUTE TO PROTEIN STABILITY
    BURLEY, SK
    PETSKO, GA
    [J]. TRENDS IN BIOTECHNOLOGY, 1989, 7 (12) : 354 - 359
  • [5] PROTON MAGNETIC-RESONANCE STUDIES OF TYROSINE RESIDUES OF HEN LYSOZYME-ASSIGNMENT AND DETECTION OF CONFORMATIONAL MOBILITY
    CAMPBELL, ID
    DOBSON, CM
    WILLIAMS, RJP
    [J]. PROCEEDINGS OF THE ROYAL SOCIETY SERIES B-BIOLOGICAL SCIENCES, 1975, 189 (1097): : 503 - 509
  • [6] NMRPIPE - A MULTIDIMENSIONAL SPECTRAL PROCESSING SYSTEM BASED ON UNIX PIPES
    DELAGLIO, F
    GRZESIEK, S
    VUISTER, GW
    ZHU, G
    PFEIFER, J
    BAX, A
    [J]. JOURNAL OF BIOMOLECULAR NMR, 1995, 6 (03) : 277 - 293
  • [7] Equilibrium and Kinetic Unfolding of GB1: Stabilization of the Native State by Pressure
    Dreydoppel, Matthias
    Becker, Paul
    Raum, Heiner N.
    Groeger, Stefan
    Balbach, Jochen
    Weininger, Ulrich
    [J]. JOURNAL OF PHYSICAL CHEMISTRY B, 2018, 122 (38) : 8846 - 8852
  • [8] Fraczkiewicz R, 1998, J COMPUT CHEM, V19, P319, DOI 10.1002/(SICI)1096-987X(199802)19:3<319::AID-JCC6>3.0.CO
  • [9] 2-W
  • [10] Infrequent cavity-forming fluctuations in HPr from Staphylococcus carnosus revealed by pressure- and temperature-dependent tyrosine ring flips
    Hattori, M
    Li, H
    Yamada, H
    Akasaka, K
    Hengstenberg, W
    Gronwald, W
    Kalbitzer, HR
    [J]. PROTEIN SCIENCE, 2004, 13 (12) : 3104 - 3114