Laccase Redox Potentials: pH Dependence and Mutants, a QM/MM Study

被引:15
作者
Gotze, Jan P. [1 ]
Buhl, Michael [1 ]
机构
[1] Univ St Andrews, EastChem Sch Chem, St Andrews KY16 9ST, Fife, Scotland
基金
英国工程与自然科学研究理事会;
关键词
MULTICOPPER OXIDASES; ELECTRONIC-STRUCTURE; REDUCTION POTENTIALS; COMPUTER-SIMULATION; TRANSITION-ELEMENTS; COPPER SITE; BASIS-SETS; T1; COPPER; ENERGY; APPROXIMATION;
D O I
10.1021/acs.jpcb.6b04978
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
We have studied the T. versicolor laccase T1 site redox potential (RP) at the M06/6-311++G**/SDD(Cu) level of theory, employing QM/MM-optimized geometries (RI-BP86/de-f2-SVP/def2-TZVP(Cu):CHARMM) of the whole protein System with electronic embedding. The oxidation state of the trinuclear cluster was found to affect the T1 site RP by about 02-0.3 V, depending on the protein protonation state. The computed laccase RP can be drastically lowered upon introduction of a protonation state corresponding to a neutral environment, by up to -1.37 V, which is likely an overestimation of the effect in vivo. The gradual change of the protonation state by single points without optimization or equilibration results in a change that is even larger, namely up to about -2.6V. Thus, the preferred protein conformation supports a high redox potential, compensating for the RP-lowering effect of surface Charges. The predicted change in RP on going to the F463M mutant, ca. -0.1 V, is consistent with observations for a related laccase. Based on our results, we also propose and test a D206N mutant but find it to be locked in a conformation with slightly lower RP.
引用
收藏
页码:9265 / 9276
页数:12
相关论文
共 52 条
  • [1] Toward reliable density functional methods without adjustable parameters: The PBE0 model
    Adamo, C
    Barone, V
    [J]. JOURNAL OF CHEMICAL PHYSICS, 1999, 110 (13) : 6158 - 6170
  • [2] ELECTRONIC-STRUCTURE CALCULATIONS ON WORKSTATION COMPUTERS - THE PROGRAM SYSTEM TURBOMOLE
    AHLRICHS, R
    BAR, M
    HASER, M
    HORN, H
    KOLMEL, C
    [J]. CHEMICAL PHYSICS LETTERS, 1989, 162 (03) : 165 - 169
  • [3] Quantum calculation of molecular energies and energy gradients in solution by a conductor solvent model
    Barone, V
    Cossi, M
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 1998, 102 (11) : 1995 - 2001
  • [4] COMPUTER-SIMULATION AND ANALYSIS OF THE REACTION PATHWAY OF TRIOSEPHOSPHATE ISOMERASE
    BASH, PA
    FIELD, MJ
    DAVENPORT, RC
    PETSKO, GA
    RINGE, D
    KARPLUS, M
    [J]. BIOCHEMISTRY, 1991, 30 (24) : 5826 - 5832
  • [5] Reduction thermodynamics of the T1 Cu site in plant and fungal laccases
    Battistuzzi, G
    Bellei, M
    Leonardi, A
    Pierattelli, R
    De Candia, A
    Vila, AJ
    Sola, M
    [J]. JOURNAL OF BIOLOGICAL INORGANIC CHEMISTRY, 2005, 10 (08): : 867 - 873
  • [6] DENSITY-FUNCTIONAL EXCHANGE-ENERGY APPROXIMATION WITH CORRECT ASYMPTOTIC-BEHAVIOR
    BECKE, AD
    [J]. PHYSICAL REVIEW A, 1988, 38 (06): : 3098 - 3100
  • [7] CHARMM: The Biomolecular Simulation Program
    Brooks, B. R.
    Brooks, C. L., III
    Mackerell, A. D., Jr.
    Nilsson, L.
    Petrella, R. J.
    Roux, B.
    Won, Y.
    Archontis, G.
    Bartels, C.
    Boresch, S.
    Caflisch, A.
    Caves, L.
    Cui, Q.
    Dinner, A. R.
    Feig, M.
    Fischer, S.
    Gao, J.
    Hodoscek, M.
    Im, W.
    Kuczera, K.
    Lazaridis, T.
    Ma, J.
    Ovchinnikov, V.
    Paci, E.
    Pastor, R. W.
    Post, C. B.
    Pu, J. Z.
    Schaefer, M.
    Tidor, B.
    Venable, R. M.
    Woodcock, H. L.
    Wu, X.
    Yang, W.
    York, D. M.
    Karplus, M.
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 2009, 30 (10) : 1545 - 1614
  • [8] Geometries of transition-metal complexes from density-functional theory
    Buehl, Michael
    Kabrede, Hendrik
    [J]. JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2006, 2 (05) : 1282 - 1290
  • [9] Insights into structure and redox potential of lignin peroxidase from QM/MM calculations
    Castro, Ludovic
    Crawford, Luke
    Mutengwa, Archford
    Goetze, Jan P.
    Buehl, Michael
    [J]. ORGANIC & BIOMOLECULAR CHEMISTRY, 2016, 14 (08) : 2385 - 2389
  • [10] Calculations of One-Electron Redox Potentials of Oxoiron(IV) Porphyrin Complexes
    Castro, Ludovic
    Buehl, Michael
    [J]. JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2014, 10 (01) : 243 - 251