Quantum decoherence and the approach to equilibrium (II)

In a previous paper [Hemmo, M & Shenker, O (2003). Quantum decoherence and the approach to equilibrium I. Philosophy of Science, 70, 330–358] we discussed a recent proposal by Albert [(2000). Time and chance. Cambridge, MA: Harvard University Press. Chapter 7] to recover thermodynamics on a purely dynamical basis, using the quantum theory of the collapse of the quantum state of [Ghirardi, G, Rimini, A and Weber, T., (1986). Unified dynamics for microscopic and macroscopic systems. Physical Review, D 34, 470–479]. We proposed an alternative way to explain thermodynamics within no collapse interpretations of quantum mechanics. In this paper some difficulties faced by both approaches are discussed and solved: the spin echo experiments, and the problem of extremely light gases. In these contexts, we point out several ways in which the above quantum mechanical approaches as well as some other classical approaches to the foundations of statistical mechanics may be distinguished experimentally.     

MYH9 is associated with nondiabetic end-stage renal disease in African Americans

As end-stage renal disease (ESRD) has a four times higher incidence in African Americans compared to European Americans, we hypothesized that susceptibility alleles for ESRD have a higher frequency in the West African than the European gene pool. We carried out a genome-wide admixture scan in 1,372 ESRD cases and 806 controls and found a highly significant association between excess African ancestry and nondiabetic ESRD (lod score = 5.70) but not diabetic ESRD (lod = 0.47) on chromosome 22q12. Each copy of the European ancestral allele conferred a relative risk of 0.50 (95% CI = 0.39-0.63) compared to African ancestry. Multiple common SNPs (allele frequencies ranging from 0.2 to 0.6) in the gene encoding nonmuscle myosin heavy chain type II isoform A (MYH9) were associated with two to four times greater risk of nondiabetic ESRD and accounted for a large proportion of the excess risk of ESRD observed in African compared to European Americans.     

Can We Explain Thermodynamics By Quantum Decoherence?

Can we explain the laws of thermodynamics, in particular the irreversible increase of entropy, from the underlying quantum mechanical dynamics? Attempts based on classical dynamics have all failed. Albert (1994a,b; 2000) proposed a way to recover thermodynamics on a purely dynamical basis, using the quantum theory of the collapse of the wavefunction of Ghirardi, Rimini and Weber (1986). In this paper we propose an alternative way to explain thermodynamics within no-collapse interpretations of quantum mechanics. Our approach relies on the standard quantum mechanical models of environmental decoherence of open systems, e.g. Joos and Zeh (1985) and Zurek and Paz (1994).     

Kemp elimination catalysts by computational enzyme design

The design of new enzymes for reactions not catalysed by naturally occurring biocatalysts is a challenge for protein engineering and is a critical test of our understanding of enzyme catalysis. Here we describe the computational design of eight enzymes that use two different catalytic motifs to catalyse the Kemp elimination-a model reaction for proton transfer from carbon-with measured rate enhancements of up to 10(5) and multiple turnovers. Mutational analysis confirms that catalysis depends on the computationally designed active sites, and a high-resolution crystal structure suggests that the designs have close to atomic accuracy. Application of in vitro evolution to enhance the computational designs produced a >200-fold increase in k(cat)/K(m) (k(cat)/K(m) of 2,600 M(-1)s(-1) and k(cat)/k(uncat) of >10(6)). These results demonstrate the power of combining computational protein design with directed evolution for creating new enzymes, and we anticipate the creation of a wide range of useful new catalysts in the future.     

Microtubule dynamics alter the interphase nucleus

Microtubules are known to drive chromosome movements and to induce nuclear envelope breakdown during mitosis and meiosis. Here we show that microtubules can enforce nuclear envelope folding and alter the levels of nuclear envelope-associated heterochromatin during interphase, when the nuclear envelope is intact. Microtubule reassembly, after chemically induced depolymerization led to folding of the nuclear envelope and to a transient accumulation of condensed chromatin at the site nearest the microtubule organizing center (MTOC). This microtubule-dependent chromatin accumulation next to the MTOC is dependent on the composition of the nuclear lamina and the activity of the dynein motor protein. We suggest that forces originating from simultaneous polymerization of microtubule fibers deform the nuclear membrane and the underlying lamina. Whereas dynein motor complexes localized to the nuclear envelope that slide along the microtubules transfer forces and/or signals into the nucleus to induce chromatin reorganization and accumulation at the nuclear membrane folds. Thus, our study identified a molecular mechanism by which mechanical forces generated in the cytoplasm reshape the nuclear envelope, alter the intranuclear organization of chromatin, and affect the architecture of the interphase nucleus.