The 'H NMR spectrum of the 65-residue protein hirudin is assigned in a sequential manner by using a combination of two-dimensional nuclear magnetic resonance techniques to demonstrate through-bond and through-space (<5-i() connectivities. The secondary structure of hirudin is deduced from a qualitative interpretation of the nuclear Overhauser effects involving the backbone NH, CaH, and CPH prot...

HP0495 (Swiss-Prot ID; Y495_HELPY) is an 86-residue hypothetical protein from Helicobacter pylori strain 26695. The function of HP0495 cannot be identified based on sequence homology, and HP0495 is included in a fairly unique sequence family. Here, we report the sequence-specific backbone resonance assignments of HP0495. About 97% of all the 1HN, 15N, 13Calpha, 13Cbeta, and 13CO resonances were...

The automation of the entire NMR protein structure determination process requires a superior error tolerant backbone resonance assignment method. Although a variety of assignment approaches have been developed, none works well on noisy automatically picked peaks. IPASS is proposed as a novel integer linear programming (ILP) based assignment method. In order to reduce size of the problem, IPASS ...

A simple, five-element descriptor, derived from the Delaunay tessellation of a protein structure in a single point per residue representation, can be assigned to each residue in the protein. The descriptor characterizes main-chain topology and connectivity in the neighborhood of the residue and does not explicitly depend on putative hydrogen bonds or any geometric parameter, including bond leng...

In this paper, we present a network flow based approach for network selection for secondary users in cognitive radio networks. Most approaches in the current literature on cognitive radio do not consider network selection. We present a network flow framework for network selection. We show that our approach can enable re-assignment of networks to secondary users and also re-assignment of channel...

stress refers to the degree of force used in producing a syllable. all of the words in lexicon regardless of the apparent structure and the number of their syllables have their own stress. given that the regularities governing stress assignment in persian depend on the type of lexical category and that persian speakers have a tendency to assign stress at the end of words, the goal of the presen...

We report the complete solid-state MAS NMR resonance assignment of a medium-sized, trimeric membrane protein, YadA-M. The protein YadA (Yersinia adhesin A) is an important virulence factor of enteropathogenic Yersinia species (such as Yersinia enterocolitica and Yersinia pseudotuberculosis). YadA is localized on the bacterial cell surface and is involved in adhesion to host cells and tissues. I...

Jingzhaotoxin-I (JZTX-I) purified from the venom of the spider Chilobrachys jingzhao is a novel neurotoxin preferentially inhibiting cardiac sodium channel inactivation by binding to receptor site 3. The structure of this toxin in aqueous solution was investigated using 2-D 1H-NMR techniques. The complete sequence-specific assignments of proton resonance in the 1H-NMR spectra of JZTX-I were obt...

Single-stranded regions in RNA secondary structure are important for RNA-RNA and RNA-protein interactions. We present a probability profile approach for the prediction of these regions based on a statistical algorithm for sampling RNA secondary structures. For the prediction of phylogenetically-determined single-stranded regions in secondary structures of representative RNA sequences, the proba...