Encyclopedia of Biophysics

  title={Encyclopedia of Biophysics},
  author={Gordon C. K. Roberts},
  booktitle={Springer Berlin Heidelberg},
  • G. Roberts
  • Published in Springer Berlin Heidelberg 2013
ion of the a-proton from acetyl-CoA by Asp375, creating the enolate form. It was long believed that this was converted into an enol (e.g., by proton transfer from His274), but several computer modeling studies (in particular using high-level QM/MM methods) indicated that the enolate is the true transient intermediate species in the enzyme reaction (e.g., Mulholland et al. 2000; Van der Kamp et al. 2010). The enolate form is stabilized by electrostatic interactions in the enzyme active site… Expand
Stereochemistry, lipid length and branching influences Mincle agonist activity of monoacylglycerides.
6h, 6a, 8a, and 8b exhibited the best immunostimulatory properties and thus, have potential as vaccine adjuvants and, taken together, 6h (sn-1, iC26+1), 8a (sn -1, C32) and 8B (Sn-3, C 32) exhibited the worst immunostIMulatory properties. Expand
Ricin uses arginine 235 as an anchor residue to bind to P-proteins of the ribosomal stalk
It is proposed that Arg235 serves as an anchor residue and cooperates with nearby arginines and the hydrophobic interactions to provide the binding specificity and strength in ribosome targeting of RTA. Expand
Photosynthetic Proteins in Supported Lipid Bilayers: Towards a Biokleptic Approach for Energy Capture.
The progress made to date in the development of supported lipid bilayer systems suitable for the investigation of membrane proteins is described; in particular, there is a focus on those used for the reconstitution of proteins involved in light capture. Expand
Dynamical Aspects of Biomacromolecular Multi-resolution Modelling Using the UltraScan Solution Modeler (US-SOMO) Suite
The UltraScan SOlution MOdeler (US-SOMO) suite of computer programs was developed for the computation of the solution properties of biomacromolecules starting from their atomic resolution structures, and their comparison with experimental data is discussed. Expand
Structures of bacterial homologues of SWEET transporters in two distinct conformations
It is shown that SemiSWEET molecules, which consist of a triple-helix bundle, form symmetrical, parallel dimers, thereby generating the translocation pathway and indicating two possibilities: that SWEETs and MFS transporters evolved from an ancestral triple- helix bundle or that the triple- Helix bundle represents convergent evolution. Expand
Flavins as Covalent Catalysts: New Mechanisms Emerge.
Noncanonical covalent reactions by flavins are emerging as a new pervasive concept in basic enzymology and biochemistry, positioning the knowledge being gained from these new mechanisms to be translated into drugs that function through covalents. Expand
HIV-1 DIS stem loop forms an obligatory bent kissing intermediate in the dimerization pathway
A single-molecule Förster resonance energy transfer (smFRET) study of the dimerization reaction kinetics is presented and the presence of a previously unobserved bent intermediate required for extended duplex formation is revealed. Expand
Expanding CSDB_GT glycosyltransferase database with Escherichia coli
The CSDB_GT was extended to provide not only experimentally confirmed GT activities, but also those predicted on the basis of gene or protein sequence homology that could carry valuable information, and a new confirmation status-predicted in silico-was introduced. Expand
NM23 proteins: innocent bystanders or local energy boosters for CFTR?
The many roles of NDPK-A and -B in CFTR function and, especially lumen formation, which is defective in the gut and lungs of many CF babies are poised to be understood. Expand
Assessment of DNA-binding affinity of cholinesterase reactivators and electrophoretic determination of their effect on topoisomerase I and II activity.
Electrophoretic methods proved that the studied compounds clearly influence calf thymus Topo I (at 5 μM concentration, except for compounds K107, K111 and K114 which were effective at higher concentrations) and human Topo II (K110 partially inhibited Topo III effects even at 5 μm concentration) activity. Expand