What determines the shape of the allowed regions in the Ramachandran plot? Although Ramachandran explained these regions in terms of 1-4 hard-sphere repulsions, there are discrepancies with the data where, in particular, the alphaR, alphaL, and beta-strand regions are diagonal. The alphaR-region also varies along the alpha-helix where it is constrained at the center and the amino terminus but d...

Suppose that each member of a set of agents has a preference list of a subset of houses, possibly involving ties, and each agent and house has their capacity denoting the maximum number of houses/agents (respectively) that can be matched to him/her/it. We want to find a matching M , called popular, for which there is no other matching M ′ such that more agents prefer M ′ to M than M to M ′, sub...

The hepadnavirus encapsidation signal, epsilon (ε), is an RNA structure located at the 5' end of the viral pregenomic RNA. It is essential for viral replication and functions in polymerase protein binding and priming. This structure could also have potential regulatory roles in controlling the expression of viral replicative proteins. In addition to its structure, the primary sequence of this R...

Control of projects is a core issue for organizations. Successful projects, such as information systems projects, enable organizations to develop a superior supply network and enhance the capability of operations management. A few studies have investigated the effects of control on project performance; however, complexity risk has not been integrated into the relationship between control andper...

parent function, definition be-gins, 26abstract parent function, definition com-pleted, 30allowable permutation, 28ambiguity, axiom scheme of, 13anomaly of a near litter, 34atom, irregular, 27atoms, regular, 26axiom of weak extensionality, 15axiom scheme of ambiguity, 13axioms of NF, 11axioms of TST, 8, 10 Choice false in NF, 13Choice, axiom o...

Comparative genomic analyses are powerful tools that can be used to analyze the presence, conservation, and evolution of protein families and to elucidate issues concerning their function. To deal with these questions, we have chosen the clan CD of cysteine peptidases, which is formed by different protein families that play key roles in plants. An evolutionary comparative analysis of clan CD cy...

Serine proteases are involved in a variety of biological processes and are classified into clans sharing structural homology. Although various three-dimensional structures of SC clan proteases have been experimentally determined, they are mostly bacterial and animal proteases, with some from archaea, plants, and fungi, and as yet no structures have been determined for protozoa. To bridge this g...