Conformational Propensities of Intrinsically Disordered Proteins from NMR Chemical Shifts

被引:64
作者
Kragelj, Jaka [1 ]
Ozenne, Valery [1 ]
Blackledge, Martin [1 ]
Jensen, Malene Ringkjobing [1 ]
机构
[1] UJF, CNRS, CEA, Inst Biol Struct,UMR 5075, F-38027 Grenoble, France
关键词
chemical shifts; conformational propensities; ensemble description; intrinsically disordered proteins; NMR; RESIDUAL DIPOLAR COUPLINGS; NATIVELY UNFOLDED PROTEINS; PARTIALLY FOLDED PROTEINS; MAGNETIC-RESONANCE-SPECTROSCOPY; SEQUENCE-SPECIFIC ASSIGNMENT; C-TERMINAL DOMAIN; ANGLE X-RAY; 8 M UREA; ALPHA-SYNUCLEIN; SECONDARY STRUCTURE;
D O I
10.1002/cphc.201300387
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
The realization that a protein can be fully functional even in the absence of a stable three-dimensional structure has motivated a large number of studies describing the conformational behaviour of these proteins at atomic resolution. Here, we review recent advances in the determination of local structural propensities of intrinsically disordered proteins (IDPs) from experimental NMR chemical shifts. A mapping of the local structure in IDPs is of paramount importance in order to understand the molecular details of complex formation, in particular, for IDPs that fold upon binding or undergo structural transitions to pathological forms of the same protein. We discuss experimental strategies for the spectral assignment of IDPs, chemical shift prediction algorithms and the generation of representative structural ensembles of IDPs on the basis of chemical shifts. Additionally, we highlight the inherent degeneracies associated with the determination of IDP sub-state populations from NMR chemical shifts alone.
引用
收藏
页码:3034 / 3045
页数:12
相关论文
共 149 条
[71]   Impact of N-Terminal Acetylation of α-Synuclein on Its Random Coil and Lipid Binding Properties [J].
Maltsev, Alexander S. ;
Ying, Jinfa ;
Bax, Ad .
BIOCHEMISTRY, 2012, 51 (25) :5004-5013
[72]   Extension of the HA-detection based approach: (HCA)CON(CA)H and (HCA)NCO(CA)H experiments for the main-chain assignment of intrinsically disordered proteins [J].
Mantylahti, Sampo ;
Hellman, Maarit ;
Permi, Perttu .
JOURNAL OF BIOMOLECULAR NMR, 2011, 49 (02) :99-109
[73]   HA-detected experiments for the backbone assignment of intrinsically disordered proteins [J].
Mantylahti, Sampo ;
Aitio, Olli ;
Hellman, Maarit ;
Permi, Perttu .
JOURNAL OF BIOMOLECULAR NMR, 2010, 47 (03) :171-181
[74]   Describing sequence-ensemble relationships for intrinsically disordered proteins [J].
Mao, Albert H. ;
Lyle, Nicholas ;
Pappu, Rohit V. .
BIOCHEMICAL JOURNAL, 2013, 449 :307-318
[75]   Enhanced Conformational Space Sampling Improves the Prediction of Chemical Shifts in Proteins [J].
Markwick, Phineus R. L. ;
Cervantes, Carla F. ;
Abel, Barrett L. ;
Komives, Elizabeth A. ;
Blackledge, Martin ;
McCammon, J. Andrew .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2010, 132 (04) :1220-+
[76]   Sensitivity of secondary structure propensities to sequence differences between α- and γ-synuclein:: Implications for fibrillation [J].
Marsh, Joseph A. ;
Singh, Vinay K. ;
Jia, Zongchao ;
Forman-Kay, Julie D. .
PROTEIN SCIENCE, 2006, 15 (12) :2795-2804
[77]   Probing the diverse landscape of protein flexibility and binding [J].
Marsh, Joseph A. ;
Teichmann, Sarah A. ;
Forman-Kay, Julie D. .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 2012, 22 (05) :643-650
[78]   Ensemble modeling of protein disordered states: Experimental restraint contributions and validation [J].
Marsh, Joseph A. ;
Forman-Kay, Julie D. .
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2012, 80 (02) :556-572
[79]   Structural Diversity in Free and Bound States of Intrinsically Disordered Protein Phosphatase 1 Regulators [J].
Marsh, Joseph A. ;
Dancheck, Barbara ;
Ragusa, Michael J. ;
Allaire, Marc ;
Forman-Kay, Julie D. ;
Peti, Wolfgang .
STRUCTURE, 2010, 18 (09) :1094-1103
[80]   Structure and Disorder in an Unfolded State under Nondenaturing Conditions from Ensemble Models Consistent with a Large Number of Experimental Restraints [J].
Marsh, Joseph A. ;
Forman-Kay, Julie D. .
JOURNAL OF MOLECULAR BIOLOGY, 2009, 391 (02) :359-374