Structural investigations are a prerequisite to understand protein function. Intermediate time scale motional processes (ns-micros) are deleterious for NMR of biological solids and obscure the detection of amide moieties in traditional CP based solid-state NMR approaches as well as in regular scalar coupling based experiments. We show that this obstacle can be overcome by using TROSY type techn...

Apolipoprotein (apo) A-V is a 343-residue, multidomain protein that plays an important role in regulation of plasma triglyceride homeostasis. Primary sequence analysis revealed a unique tetraproline sequence (Pro293-Pro296) near the carboxyl terminus of the protein. A peptide corresponding to the 48-residue segment beyond the tetraproline motif was generated from a recombinant apoA-V precursor ...

We have used NMR spectroscopy to characterize an oligonucleotide stem loop structure based on the pre-element of an oncogenic microRNA, miR-21. This predicted stem-loop structure is cleaved from the precursor of miR-21 (pre-miR-21) by the nuclease Dicer. It is also a critical feature recognized by the protein complex that converts the primary transcript (pri-miR-21) into the pre-miRNA. The seco...

dna sequence, containing all genetic traits is not a functional entity. instead, it transfers to protein sequences by transcription and translation processes. this protein sequence takes on a 3d structure later, which is a functional unit and can manage biological interactions using the information encoded in dna. every life process one can figure is undertaken by proteins with specific functio...

We consider the inverse-folding problem for RNA secondary structures: for a given (pseudo-knot-free) secondary structure we want to find a sequence that has a certain structure as its ground state. If such a sequence exists, the structure is called designable. We have implemented a branch-and-bound algorithm that is able to do an exhaustive search within the sequence space, i.e., gives an exact...

The combination of structural class assignment with intensive sequences comparisons has permitted to develop a new concept in the prediction of the secondary structure of proteins called a self optimised prediction method (SOPM). The accuracy of this method has been checked onto an updated release of the Kabsch & Sander database which comprises 239 protein chains. This new method correctly pred...

This paper presents a method of determining, from Present State Next State Present Output the flow table of an autonomous sequential machine, whether the machine can be realized by a linear circuit which uses the minimum sI SI possible number of secondary variables. The method is based on a ssz z class of binary partitions of states, which are used to find a minimal 2 assignment of the secondar...

Protein sequence alignment is at the core of a variety of fundamental tasks such as homology modeling, fold recognition, evolutionary studies and more. Much attention was dedicated over recent years for alignment of sequences in the twilight zone, where pairwise sequence alignment methods (e.g. BLAST) perform poorly. State of the art methods employ sequence profiles, and sometimes meta-sequence...

Here, new N,N′-dipyridoxyl(4,4''-diaminodiphenylether) Schiff-base ligand has been synthesized and characterized by IR, 1H NMR and mass spectrometry. Also, geometry optimization and theoretical assignment of IR spectrum of the ligand have been computed by employing density functional theory (DFT) method. Two pyridine rings and benzene rings in the bridge region are not in the same plane. The ca...

Understanding secondary structures of RNAs helps to determine their chemical and biological properties. Only a small number of RNA structures have been determined currently since such structure determination experiments are timeconsuming and expensive. As a result, scientists start to rely on RNA secondary structure prediction. Unlike protein structure prediction, predicting RNA secondary struc...