New information-theoretic foundations for quantum statistics

When the state of a physical system is not fully determined by available data, it should be possible nevertheless to make a systematic guess concerning the unknown state by applying the principles of information theory. The resulting theoretical blend of informational and mechanical constructs should then constitute a modern structure for statistical physics. Such a program has been attempted by a number of authors, most notably Jaynes, with seeming success. However, we demonstrated in a recent publication that the standard list of so-called mutually exclusive and exhaustive quantum states that is commonly employed by these authors is in fact not exhaustive. It follows that the information-theoretic foundations of quantum statistics must be reformulated. The present paper discusses the fundamental problems involved and establishes a format for the correct application of information theory to quantum mechanical situations.Work supported by a grant from Research Corporation.     

等离子体湍流能量传输的尺度相关性

对于空间环境中近乎无碰撞的等离子体,可采用Vlasov方程进行理论描述,基于Vlasov方程,讨论了等离子体湍流能量传输和耗散的过程:由亚格子应力引起的尺度间的能量传输,电场做功,压强张量做功(压强张量与速度梯度张量的相互作用).通过混合Vlasov-Maxwell(HVM)数值模拟,进一步研究了能量传输通道之间的联系...     

Covalent labeling of a chromatin reader domain using proximity-reactive cyclic peptides

Chemical probes for chromatin reader proteins are valuable tools for investigating epigenetic regulatory mechanisms and evaluating whether the target of interest holds therapeutic potential. Developing potent inhibitors for the plant homeodomain (PHD) family of methylation readers remains a difficult task due to the charged, shallow and extended nature of the histone binding site that precludes effective engagement of conventional small molecules. Herein, we describe the development of novel proximity-reactive cyclopeptide inhibitors for PHD3—a trimethyllysine reader domain of histone demethylase KDM5A. Guided by the PHD3–histone co-crystal structure, we designed a sidechain-to-sidechain linking strategy to improve peptide proteolytic stability whilst maintaining binding affinity. We have developed an operationally simple solid-phase macrocyclization pathway, capitalizing on the inherent reactivity of the dimethyllysine ε-amino group to generate scaffolds bearing charged tetraalkylammonium functionalities that effectively engage the shallow aromatic ‘groove’ of PHD3. Leveraging a surface-exposed lysine residue on PHD3 adjacent to the ligand binding site, cyclic peptides were rendered covalent through installation of an arylsulfonyl fluoride warhead. The resulting lysine-reactive cyclic peptides demonstrated rapid and efficient labeling of the PHD3 domain in HEK293T lysates, showcasing the feasibility of employing proximity-induced reactivity for covalent labeling of this challenging family of reader domains.

We describe the development of covalent cyclic peptide ligands which target a chromatin methylation reader domain using a proximity-reactive sulfonyl fluoride moiety.     

Reactivity of tetrahydrochromeno[2,3‐b]indoles: chromic indicators of cyanide

The synthesis and reactivity of a tetrahydrochromeno[2,3‐b]indoles are reported. Evidence for reversible ring‐opening is based on H/D exchange and trapping experiments. These compounds readily undergo reaction with tetra‐n‐butylammonium cyanide. The cyanide reaction is 10–100× faster when the solution is irradiated with 350 nm light. Reaction with trimethylsilyl cyanide occurs only with UV irradiation demonstrating photoreactivity. The rate of tetrahydrochromeno[2,3‐b]indole ring‐opening is greater for (i) Me substitution at the hemiaminal carbon (compared to Ph), and (ii) substitution of fluorine at the 9‐position of the indole. Under acidic conditions, the ring‐opened indolium ion is observed. Copyright © 2013 John Wiley & Sons, Ltd.     

Phosphine and phosphinite complexes of P+ and P2

Abstract

Reduction of PCl₃ e.g. with trialkyl phosphines produces the well-known but ill-defined insoluble, amorphous, orange material approximating a phosphorus subchloride. In repeating this reduction with Ph₃P and with AlCl₃ as a third component we now obtained crystalline hexaphenyl triphosphenium tetrachloroaluminate. It may be thought to derive from the four electron cation P⁺ being complexed by two Ph₃P.     

Pyridyl-, bipyridyl-, and terpyridyl-functionalised azamacrocycles

Abstract

A series of azamacrocycles which have been N-functionalised with pendent pyridylmethyl-(pyCH₂-), bipyridylmethyl-(bipyCH₂-) and terpyridylmethyl- (terpyCH₂-) arms have been synthesised and characterised, and some of their coordination chemistry with transition metal ions is reported. By attaching the pendent-arms at the 5- rather than the 6-position of the py, bipy and terpy, new ligands are generated which can be used to form polynuclear metal complexes in a controlled and systematic fashion. Fluorescent pH and transition metal ion sensors have been developed by reacting the azamacrocyclic N-pendent bipyCH₂ arm(s) with cis-[Ru(bipy)₂Cl₂], to give macrocycles with up to four attached [Ru(bipy)₃]²⁺ groups. That based on 1,4,7-triazacyclononane (9N3), with three attached [Ru(bipy)₃]²⁺ groups, has a first photo excited state pK_a of 7.1, and is a useful fluorescent sensor for physiological pH at below micromolar concentrations. The analogous derivative of cyclam (1,4,8,11-tetraazacyclotetradecane) carrying four [Ru(bipy)₃]²⁺ groups has a first photo excited state pK_a of 5.7, allowing kinetic and thermodynamic fluorescence studies of metal ion uptake by an azamacrocycle at neutral pH without complications from protonated species. A pre-organised hexadentate tris(2,2′-bipyridyl) chelating ligand, 1,4,7-tris(2′,2″-bipyridyl-5′-ylmethyl)-1,4,7-triazacyclononane (L) has been developed, and crystal structures of mononuclear complexes [M(LH)]³⁺ (M = Ru, Cu) are reported. In [M(LH)]³⁺ the azamacrocyclic N-atoms are non-coordinating to M, but have a very high affinity for a single proton trapped in the macrocyclic cavity. An analogous and potentially nonadentate ligand has been developed based on 9N3 with three N-pendent terpyCH₂-arms.     

The ornithine effect in peptide cation dissociation

Facile cleavage C‐terminal to ornithine residues in gas phase peptides has been observed and termed the ornithine effect. Peptides containing internal or C‐terminal ornithine residues, which are formed from deguanidination of arginine in solution, were fragmented to produce either a y‐ion or water loss, respectively, and the complementary b‐ion. The fragmentation patterns of several peptides containing arginine were compared to those of the ornithine analogues. Conversion of arginine to ornithine results in a decrease of the gas phase proton affinity of the residue, thereby increasing the mobility of the ionizing proton. This alteration allows the nucleophilic amine to facilitate a neighboring group reaction to induce a cleavage of the adjacent amide bond. The selective cleavage at the ornithine residue is proposed to result from the highly favorable generation of a six‐membered lactam ring. The ornithine effect was compared with the well‐known proline and aspartic acid effects in peptide fragmentation using angiotensin II, DRVYIHPF and the ornithine analogue, DOVYIHPF. Under conditions favorable to either the aspartic acid (i.e. singly protonated peptide) or proline effect (i.e. doubly protonated peptide), the ornithine effect was consistently observed to be the more favorable fragmentation pathway. The highly selective nature of the ornithine effect opens up the possibility for conversion of arginine to ornithine residues to induce selective cleavages in polypeptide ions. Such an approach may complement strategies that seek to generate non‐selective cleavages of the related peptides. Copyright © 2013 John Wiley & Sons, Ltd.     

Ion mobility-mass correlation trend line separation of glycoprotein digests without deglycosylation

A high-throughput ion mobility mass spectrometer (IMMS) was used to rapidly separate and analyze peptides and glycopeptides derived from glycoproteins. Two glycoproteins, human α-1-acid glycoprotein and antithrombin III were digested with trypsin and subjected to electro-spray traveling wave IMMS analysis. No deglycosylation steps were performed; samples were complex mixtures of peptides and glycopeptides. Peptides and glycosylated peptides with different charge states (up to 4 charges) were observed and fell on distinguishable trend lines in 2-D IMMS spectra in both positive and negative modes. The trend line separation patterns matched between both modes. Peptide sequence was identified based on the corresponding extracted mass spectra and collision induced dissociation (CID) experiments were performed for selected compounds to prove class identification. The signal-to-noise ratio of the glycopeptides was increased dramatically with ion mobility trend line separation compared to non-trend line separation, primarily due to selection of precursor ion subsets within specific mobility windows. In addition, isomeric mobility peaks were detected for specific glycopeptides. IMMS demonstrated unique capabilities and advantages for investigating and separating glycoprotein digests in this study and suggests a novel strategy for rapid glycoproteomics studies in the future.     

Synthesis of Aminobisphosphonate

A new facile synthesis of aminobisphosphonate was reported. Dibenzylamine bisphosphonate (1) is prepared from dibenzylamine, triethyl orthoformate and diethyl phosphite. Deprotection by hydrogen transfer reaction and acid hydrolysis afforded aminobisphosphonate (2).