Non-extensive study of Rigid and Non-rigid Rotators

The isotropic rigid and non-rigid rotators in the framework of Tsallis statistics are studied in the high and low temperature limits. The generalized partition functions, internal energies and heat capacities are calculated. It has been found that results are in well agreement with the classical Boltzmann-Gibbs statistics in the limiting Tsallis index. It has also been observed that nonextensivity parameter q behaves like a scale parameter in the low temperature regime.Comment: 11 Pages, 3 Figures, Late

Prenatal Diagnosis of WAGR Syndrome.

Wilm's tumour, aniridia, genitourinary abnormalities, and mental retardation (WAGR) syndrome is a rare genetic disorder with an estimated prevalence of 1 in 500,000 to 1 million. It is a contiguous gene syndrome due to deletion at chromosome 11p13 in a region containing WT1 and PAX6 genes. Children with WAGR syndrome mostly present in the newborn/infancy period with sporadic aniridia. The genotypic defects in WAGR syndrome have been well established. However, antenatal ultrasonographic presentation of this syndrome has never been reported. Prenatal diagnosis of this condition is possible in some cases with careful ultrasound examination of classical and nonclassical manifestations of this syndrome. The key point for this rare diagnosis was the decision to perform chromosomal microarray analysis after antenatal diagnosis of absent corpus callosum and absent cavum septum pellucidum, as this finding mandates search for potentially associated genetic disorders. We report a case of WAGR syndrome diagnosed prenatally at 29-week gestation. The diagnosis of the anomaly was based on two- and three-dimensional ultrasound as well as fetal MRI scan and microarray analysis. The ultrasonographic findings included borderline ventriculomegaly, absent corpus callosum, and absent cavum septum pellucidum. Cytogenetic results from the amniotic fluid confirmed WAGR syndrome. Parental karyotype was normal, with no evidence of copy number change, deletion, or rearrangement of this region of chromosome 11

Exact solution of Schrodinger equation for modified Kratzer's molecular potential with the position-dependent mass

Exact solutions of Schrodinger equation are obtained for the modified Kratzer and the corrected Morse potentials with the position-dependent effective mass. The bound state energy eigenvalues and the corresponding eigenfunctions are calculated for any angular momentum for target potentials. Various forms of point canonical transformations are applied. PACS numbers: 03.65.-w; 03.65.Ge; 12.39.Fd Keywords: Morse potential, Kratzer potential, Position-dependent mass, Point canonical transformation, Effective mass Schr\"{o}dinger equation.Comment: 9 page

Probing Protein Folding with Substitution-Inert Metal Ions. Folding Kinetics of Cobalt(III)-Cytochrome c

Ligand-substitution processes at the heme strongly influence peptide backbone dynamics during the folding of cytochrome c (cyt c). When cyt c is unfolded with guanidine hydrochloride (GuHCl) at pH 7, one of the axial ligands (Met 80) is replaced by a nitrogenous base from an amino acid residue; this misligation introduces an energy barrier with an associated folding time of several hundred milliseconds. A great deal of evidence points to His 26 or His 33 as the ligand in unfolded horse heart cyt c. Nevertheless, recent studies indicate that other bases (Lys or N-terminus in yeast cyt c) can act as ligands as well. We have found that the substitution-inert heme in the Co(III) derivative of cyt c (Co-cyt c) allows a closer look at the folding kinetics and the ligands in the unfolded form of this protein

Structural Evidence for Asymmetrical Nucleotide Interactions in Nitrogenase

The roles of ATP hydrolysis in electron-transfer (ET) reactions of the nitrogenase catalytic cycle remain obscure. Here, we present a new structure of a nitrogenase complex crystallized with MgADP and MgAMPPCP, an ATP analogue. In this structure the two nucleotides are bound asymmetrically by the Fe-protein subunits connected to the two different MoFe-protein subunits. This binding mode suggests that ATP hydrolysis and phosphate release may proceed by a stepwise mechanism. Through the associated Fe-protein conformational changes, a stepwise mechanism is anticipated to prolong the lifetime of the Fe-protein-MoFe-protein complex and, in turn, could orchestrate the sequence of intracomplex ET required for substrate reduction

Nitrogenase MoFe-Protein at 1.16 Å Resolution: A Central Ligand in the FeMo-Cofactor

A high-resolution crystallographic analysis of the nitrogenase MoFe-protein reveals a previously unrecognized ligand coordinated to six iron atoms in the center of the catalytically essential FeMo-cofactor. The electron density for this ligand is masked in structures with resolutions lower than 1.55 angstroms, owing to Fourier series termination ripples from the surrounding iron and sulfur atoms in the cofactor. The central atom completes an approximate tetrahedral coordination for the six iron atoms, instead of the trigonal coordination proposed on the basis of lower resolution structures. The crystallographic refinement at 1.16 angstrom resolution is consistent with this newly detected component being a light element, most plausibly nitrogen. The presence of a nitrogen atom in the cofactor would have important implications for the mechanism of dinitrogen reduction by nitrogenase

A new approach to the exact solutions of the effective mass Schrodinger equation

Effective mass Schrodinger equation is solved exactly for a given potential. Nikiforov-Uvarov method is used to obtain energy eigenvalues and the corresponding wave functions. A free parameter is used in the transformation of the wave function. The effective mass Schrodinger equation is also solved for the Morse potential transforming to the constant mass Schr\"{o}dinger equation for a potential. One can also get solution of the effective mass Schrodinger equation starting from the constant mass Schrodinger equation.Comment: 14 page

Analytical Solutions of Klein-Gordon Equation with Position-Dependent Mass for q-Parameter Poschl-Teller potential

The energy eigenvalues and the corresponding eigenfunctions of the one-dimensional Klein-Gordon equation with q-parameter Poschl-Teller potential are analytically obtained within the position-dependent mass formalism. The parametric generalization of the Nikiforov-Uvarov method is used in the calculations by choosing a mass distribution.Comment: 10 page

Flow dynamics and mixing processes in hydraulic jump arrays: Implications for channel-lobe transition zones

A detailed field investigation of a saline gravity current in the southwest Black Sea has enabled the first complete analysis of three-dimensional flow structure and dynamics of a series of linked hydraulic jumps in stratified, density-driven, flows. These field observations were collected using an acoustic Doppler current profiler mounted on an autonomous underwater vehicle, and reveal that internal mixing processes in hydraulic jumps, including flow expansion and recirculation, provide a previously unrecognised mechanism for grain-size sorting and segregation in stratified density-driven flows. Field observations suggest a newly identified type of hydraulic jump, that is a stratified low Froude number (< 1.5–2) subaqueous hydraulic jump, with an enhanced ability to transport sediment downstream of the jump, in comparison to hydraulic jumps in other subaerial and submarine flows. These novel field data underpin a new process-based conceptual model of channel lobe transition zones (CLTZs) that explains the scattered offset nature of scours within such settings, the temporal variations in infill and erosion between adjacent scours, how bed shear stresses are maintained across the CLTZ, and why the locus of deposition is so far downstream of the scour zone