Specific heat measurements on the magnetic layer compounds(BA)2Cu(Ox)2 and (CHA)2Cu(Ox)2·H2O

Specific heat data on (BA)₂Cu(Ox)₂ and (CHA)₂Cu(Ox)₂·H₂O below 1 K are reported (BA = C₆H₅ CH₂NH₃⁺, CHA = C₆H₃⁺, Ox = C₂O₄²). The magnetic contributions have the form of broad maxima, occurring near 0.15. A λ-type anomaly is observed for (BA)₂Cu(Ox)₂ at T_c = 0.116(3) K. For (CHA)₂Cu(Ox)₂·H₂O no such ordering is seen.(BA)₂Cu(Ox)₂ appears to be a quadratic S = 1/2 Heisenberg antiferromagnet with J/k = ?0.145 (3) K. The compound (CHA)₂Cu(Ox)₂·H₂O shows a behaviour that is in between 1-D and 2-D S = 1/2 Heisenberg antiferromagnetism.     

Upperbound procedures for the identification of similar three-dimensional chemical structures

Summary This paper describes techniques for calculating the degree of similarity between an input query molecule and each of the molecules in a database of 3-D chemical structures. The inter-molecular similarity measure used is the number of atoms in the 3-D common substructure (CS) between the two molecules which are being compared. The identification of 3-D CSs is very demanding of computational resources, even when an efficient clique detection algorithm is used for this purpose. Two types of upperbound calculation are described which allow reductions in the number of exact CS searches which need to be carried out to identify those molecules from a database which are similar to a 3-D target molecule.     

A fourier fingerprint-based method for protein surface representation

A crucial enabling technology for structural genomics is the development of algorithms that can predict the putative function of novel protein structures: the proposed functions can subsequently be experimentally tested by functional studies. Testable assignments of function can be made if it is possible to attribute a putative, or indeed probable, function on the basis of the shapes of the binding sites on the surface of a protein structure. However the comparison of the surfaces of 3D protein structures is a computationally demanding task. Here we present four surface representations that can be used locally to describe the global shape of specifically bounded local region models. The most successful of these representations is obtained by a Fourier analysis of the distribution of surface curvature on concentric spheres around a surface point and summarizes a 24 A diameter spherically clipped region of protein surface by a fingerprint of 18 Fourier amplitude values. Searching experiments using these fingerprints on a set of 366 proteins demonstrate that this provides an effective and an efficient technique for the matching of protein surfaces.     

Similarity searching using reduced graphs

Reduced graphs provide summary representations of chemical structures. In this work, the effectiveness of reduced graphs for similarity searching is investigated. Different types of reduced graphs are introduced that aim to summarize features of structures that have the potential to form interactions with receptors while retaining the topology between the features. Similarity searches have been carried out across a variety of different activity classes. The effectiveness of the reduced graphs at retrieving compounds with the same activity as known target compounds is compared with searching using Daylight fingerprints. The reduced graphs are shown to be effective for similarity searching and to retrieve more diverse active compounds than those found using Daylight fingerprints; they thus represent a complementary similarity searching tool.     

Interfacial chemistries for nanoscale transfer printing

We describe a patterning technique that uses self-assembled monolayers and other surface chemistries for guiding the transfer of material from relief features on a stamp to a substrate. This purely additive contact printing technique is capable of nanometer resolution. Pattern transfer is fast and it occurs at ambient conditions. We illustrate the versatility of this method by printing single-layer metal patterns with feature sizes from a few tens of microns to a few tens of nanometers. We also demonstrate its use for patterning, in a single step, metal/dielectric/metal multilayers for functional thin film capacitors on plastic substrates.     

Structural DNA profiles: single sequence queries

Structural DNA profiles use the structural properties of the constituent octamers either to observe any characteristics of a single sequence that are unusual (a single sequence query) or to visualize a pattern common to a set of sequences (a multiple sequence query). They are an aid in understanding structural reasons for functional DNA activity. Profiles that answer single sequence queries are introduced and Profile Manager (a software application developed to automate profile generation) is presented. Two sequences that are similar by their nucleotide composition but are known to be very different by structure are analyzed, resulting in useful illustrations that agree with the experimental nuclear magnetic resonance structures.