... to understand the mechanism of recognition of the Z-DNA/Z-RNA by these domains. To this end, we assessed the binding thermodynamics of Zα domain from ORF112 and ADAR1 on T(CG) 3 and T(CG) 6 oligonucleotides which have high propensity to adopt the Z-conformation. Our study highlights important differences...

... published by Portland Press Limited on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY-NC-ND) . 18-crown-6 allostery autoinhibition selectivity tertiary recognition thermodynamics Nef is an accessory protein that enhances...

... Limited on behalf of the Biochemical Society 2020 kinetic stability point mutations protein conformation sequence evolution statistical model thermodynamics The extant sequences of proteins are a product of innumerable mutational iterations over the evolutionary timeline. Mutations can...

.... Here, we have determined the crystal structure of TauA and have characterized its thermodynamic binding parameters by isothermal titration calorimetry in complex with taurine and different alkanesulfonates. Our structures revealed that the coordination of the alkanesulfonates is conserved...

... mode’, and the replacement of ‘ChemScore’ with ‘ASP’ as a restoring function. density functional theory enzyme kinetics enzyme–substrate interactions molecular dynamics thermodynamics translation factors Chiral discrimination of amino acids is essential for the two connected steps...

... 26 10 2018 molecular interactions receptor tyrosine kinases thermodynamics Trk-A RTKs (receptor tyrosine kinases), the second largest family of membrane receptors, are known to control cell growth, differentiation, and motility via lateral dimerization in the membrane...

...-based approaches have been proposed, a self-consistent description that is simultaneously compatible with unfolding thermodynamics is lacking. We recently developed a simple structural perturbation protocol that captures the changes in thermodynamic stabilities induced by point mutations within...

... development. To determine the subtype-specific IP 3 -binding mechanism, we compared the thermodynamics, thermal stability, and conformational dynamics between the N-terminal regions of IP 3 R1 (IP 3 R1-NT) and IP 3 R3 (IP 3 R3-NT) by performing circular dichroism (CD), isothermal titration calorimetry (ITC...

...Weronika Kotkowiak; Michał Kotkowiak; Ryszard Kierzek; Anna Pasternak Unlocked nucleic acids (UNAs) have been introduced at specific positions in short model DNA hairpins and RNA/DNA triplexes for the first time. UNA residues destabilize the hairpins and decrease triplex thermodynamic stability...

... particularly on the extra-specificities of haem metabolites and L-PGDS. The ITC and ICD data revealed that two molecules of the haem metabolites bind to L-PGDS with high and low affinities, showing K d values from 2.8 to 18.1 nM and from 0.209 to 1.63 μM respectively. The thermodynamic parameters...

... specificity lysine binding low-density lipoprotein receptor low-density lipoprotein receptor-related protein (LRP) model compound thermodynamics The LRP (low-density lipoprotein receptor-related protein) is a multidomain mosaic-like receptor present on many mammalian cells [ 1 ]. It is one...

... Biochemical Society 2009 antigenic peptide fluorine major histocompatibility complex (MHC) T-cell receptor (TCR) thermodynamics vaccine design TCR (T-cell receptor) recognition of peptides, bound and presented by class I or class II MHC (major histocompatibility complex) molecules, forms...

... of this helix. To verify this model experimentally, we have characterized the in vitro activity, overall structure, thermodynamic stability and cholesterol-binding affinity of StAR lacking the N-terminal 62 amino acid residues (termed N-62 StAR). This mature form is biologically active and has a well-defined...

... that the minimal DNA-binding site of the enzyme is 6 nt. We also report the first detailed study of the binding kinetics and thermodynamic parameters involved in the interaction between the enzyme, DNA and dNTPs. Our thermodynamic analyses indicate that the initial formation of the enzyme–DNA binary complex...

... 2007 9 5 2007 16 5 2007 16 5 2007 © The Authors Journal compilation © 2007 Biochemical Society 2007 aromatic residue binding specificity carbohydrate-binding module molecular engineering thermodynamics xylan CBMs (carbohydrate-binding modules) comprise a diverse...

... and 3.6×10 −7 M respectively. Thermodynamic studies indicate that these interactions are dominated by enthalpy. The entropy contribution is slightly favourable when binding to fucose and to the highest-affinity ligand, Lewis a. The high-resolution X-ray structures of two complexes of PA-IIL with milk...

... carbohydrate-binding module cellulose cellulose-binding domain non-crystalline thermodynamics CBMs (carbohydrate-binding modules) are discrete modules found within numerous carbohydrate-active enzymes. Their near ubiquity in plant cell wall polysaccharide-degrading enzymes is testament...

...Isabelle BOUGIE; Amélie PARENT; Martin BISAILLON RNA-capping enzymes are involved in the synthesis of the cap structure found at the 5′-end of eukaryotic mRNAs. The present study reports a detailed study on the thermodynamic parameters involved in the interaction of an RNA-capping enzyme with its...

... activation energy α-amylase calcium binding calorimetry denaturation thermodynamics Abbreviations used: BAA, Bacillus amyloliquefaciens α-amylase; BHA, Bacillus halmapalus α-amylase; BLA, Bacillus licheniformis α-amylase; DSC, differential scanning calorimetry; ITC, isothermal titration...

... ). 17 10 2002 30 1 2003 5 2 2003 5 2 2003 The Biochemical Society, London ©2003 2003 domain-structured polypeptide glycoside hydrolase multimodular protein stabilization of protein fold temperature-induced denaturation thermodynamics Abbreviations used: CBM...

...-glucan. The association of CBM28 with cello-oligosaccharides was driven enthalpically and marked by the different thermodynamic contribution of three putative binding subsites that accommodate a cellohexaose molecule. Abbreviations used: CBM, carbohydrate-binding module; CBM28, family 28 carbohydrate...

... greatly enhanced thermal stability when hybridized to complementary DNA and RNA and are considered most promising candidates for efficient recognition of a given mixed sequence in a nucleic acid duplex and as an antisense molecule. Here the kinetics and thermodynamics of a series of oligonucleotide duplex...

... pathway. In the oxidative direction, methyl groups are much more readily oxidized on H 4 MPT than on H 4 folate. Moreover, the redox reactions on H 4 MPT are coupled to more negative reductants than the pyridine nucleotides which are generally used in the H 4 folate pathway. Thermodynamics...