Deuterium isotope effects on 15N backbone chemical shifts in proteins

被引:21
作者
Abildgaard, Jens [1 ]
Hansen, Poul Erik [1 ]
Manalo, Marlon N. [2 ]
LiWang, Andy [3 ]
机构
[1] Roskilde Univ Ctr, Dept Sci Syst & Models, Roskilde, Denmark
[2] Univ Calif San Diego, Dept Chem & Biochem, La Jolla, CA 92093 USA
[3] UC Merced, Sch Nat Sci, Merced, CA USA
关键词
Protein; Hydrogen bond; Isotope effect; Backbone conformation; Formamide; Electric field effect; EMPIRICAL CORRELATION; SECONDARY STRUCTURE; NMR-SPECTROSCOPY; HYDROGEN-BONDS; C-13; CONFORMATION; ASSIGNMENT; AMIDES; COUPLINGS; UBIQUITIN;
D O I
10.1007/s10858-009-9316-0
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
Quantum mechanical calculations are presented that predict that one-bond deuterium isotope effects on the N-15 chemical shift of backbone amides of proteins, (1)Delta N-15(D), are sensitive to backbone conformation and hydrogen bonding. A quantitative empirical model for (1)Delta N-15(D) including the backbone dihedral angles, I broken vertical bar and I, and the hydrogen bonding geometry is presented for glycine and amino acid residues with aliphatic side chains. The effect of hydrogen bonding is rationalized in part as an electric-field effect on the first derivative of the nuclear shielding with respect to N-H bond length. Another contributing factor is the effect of increased anharmonicity of the N-H stretching vibrational state upon hydrogen bonding, which results in an altered N-H/N-D equilibrium bond length ratio. The N-H stretching anharmonicity contribution falls off with the cosine of the N-H center dot center dot center dot O bond angle. For residues with uncharged side chains a very good prediction of isotope effects can be made. Thus, for proteins with known secondary structures, (1)Delta N-15(D) can provide insights into hydrogen bonding geometries.
引用
收藏
页码:119 / 126
页数:8
相关论文
共 24 条
[1]   Unraveling the electronic and vibrational contributions to deuterium isotope effects on 13C chemical shifts using ab initio model calculations.: Analysis of the observed isotope effects on sterically perturbed intramolecular hydrogen-bonded o-hydroxy acyl aromatics [J].
Abildgaard, J ;
Bolvig, S ;
Hansen, PE .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1998, 120 (35) :9063-9069
[2]  
BRUNGER AT, 1987, XPLOR VERSION 3 1 SY
[3]  
Buncel E., 1991, Isotopes in Physical and Biomedical Science, V2, P1
[4]   NMRPIPE - A MULTIDIMENSIONAL SPECTRAL PROCESSING SYSTEM BASED ON UNIX PIPES [J].
DELAGLIO, F ;
GRZESIEK, S ;
VUISTER, GW ;
ZHU, G ;
PFEIFER, J ;
BAX, A .
JOURNAL OF BIOMOLECULAR NMR, 1995, 6 (03) :277-293
[5]   Studies based on deuterium isotope effect on 13C chemical shifts [J].
Dziembowska, T ;
Hansen, PE ;
Rozwadowski, Z .
PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY, 2004, 45 (1-2) :1-29
[6]   ACCURATE BOND AND ANGLE PARAMETERS FOR X-RAY PROTEIN-STRUCTURE REFINEMENT [J].
ENGH, RA ;
HUBER, R .
ACTA CRYSTALLOGRAPHICA SECTION A, 1991, 47 :392-400
[7]  
FRISCH MJ, 1995, GAUSSIAN 95
[8]   A COMMON-SENSE APPROACH TO PEAK PICKING IN 2-DIMENSIONAL, 3-DIMENSIONAL, AND 4-DIMENSIONAL SPECTRA USING AUTOMATIC COMPUTER-ANALYSIS OF CONTOUR DIAGRAMS [J].
GARRETT, DS ;
POWERS, R ;
GRONENBORN, AM ;
CLORE, GM .
JOURNAL OF MAGNETIC RESONANCE, 1991, 95 (01) :214-220
[9]   AB-INITIO CALCULATIONS OF EXTERNAL CHARGE EFFECTS ON THE ISOTROPIC C-13, N-15 AND O-17 NUCLEAR SHIELDINGS OF AMIDES [J].
HANSEN, PE ;
ABILDGAARD, J ;
HANSEN, AE .
CHEMICAL PHYSICS LETTERS, 1994, 224 (3-4) :275-282
[10]   Quantification of H/D isotope effects on protein hydrogen-bonds by h3JNC′ and 1JNC′ couplings and peptide group 15N and 13C′ chemical shifts [J].
Jaravine, VA ;
Cordier, F ;
Grzesiek, S .
JOURNAL OF BIOMOLECULAR NMR, 2004, 29 (03) :309-318