Promoting self-assembly of collagen-related peptides into various higher-order structures by metal-histidine coordination

Collagen is an important and widely used biomaterial and therapeutic. The construction of large-scale collagen structures via the self-assembly of small collagen-related peptides has been extensively studied in the past decade. Here, we report a highly effective and simple means to assemble small synthetic collagen-related peptides into various higher-order structures by utilizing metal-histidine coordination. In this work, two short collagen-related peptides in which histidine residues were incorporated as metal binding sites were designed and chemically synthesized: HG(PPG)(9)GH (X9) and HG(PPG)(4)(PHG)(PPG)(4)GH (PHG). Circular dichroism measurements indicated that these two peptides form only marginally stable collagen triple helices but that their stability can be increased upon the addition of metal ions. Dynamic light scattering analyses, turbidity measurements, TEM, and SEM results demonstrated the metal ion-dependent self-assembly of X9 and PHG into supramolecular structures ranging from various nanofibrils to microscale spherical, laminated, and granulated assemblies. The topology and size of these higher-order structures depends both on the metal ion identity and the location of the binding sites. Most intriguingly, the assembled fibrils show similar D-periodicity to that of natural collagen. Our results demonstrate that metal-histidine coordination can serve as an effective force to induce the self-assembly of unstable collagen-related peptides into higher-order structures.     

Self‐Assembly and Structure of Cobalt(II) Complexes Using Diaminodiamide Ligands

The self‐assembly of Co(II) with two diaminodiamide ligands, 4,7‐diazadecanediamide and 4,8‐diazaundecanediamide, gave two different crystals, [(C₈H₁₈N₄O₂)Co(OH)₂Co(C₈H₁₈N₄O₂)]Cl₂ ( 1 ) [Co(C₉H₂₀N₄O₂)(Cl)(H₂O)]·Cl·2H₂O ( 2 ). Structures of 1 and 2 were characterized by single‐crystal X‐ray diffraction analysis. Structural data for 1 shows a novel type of binuclear complex with distorted octahederal coordination geometry around the Co atoms through the hydroxo bridges. By using inter‐connector N‐H···N hydrogen bonding interactions as building forces, each cationic moiety [(C₈H₁₈N₄O₂)Co(OH)₂Co(C₈H₁₈N₄O₂)]²⁺ is linked to neighboring ones, producing a charged hydrogen‐bonded 1D chain‐like structure. The chains are further connected into a 2D layer in a (4,4)‐topology via N‐H···Cl_free hydrogen‐bonding interactions. Structural data for 2 indicate that the cobalt atom adopts a six‐coordinated N₂O₄ environment, giving a distorted octahedral geometry, where two N‐ and two O‐donor sets of ligand located at equatorial positions and one water and one chloride occupied at axial positions. Through NH···Cl‐Co and OH···Cl‐Co contacts, each cationic moiety [Co(C₉H₂₀N₄O₂)(Cl)(H₂O)]⁺ in 2 is linked to neighboring ones, producing a charged hydrogen‐bonded 1D chainlike structure. Thus, the crystal‐engineering approach has proved successful in the solid‐state packing due to steric strain effect of the diaminodiamide ligand.     

Incorporating support vector machine for identifying protein tyrosine sulfation sites

Tyrosine sulfation is a post‐translational modification of many secreted and membrane‐bound proteins. It governs protein‐protein interactions that are involved in leukocyte adhesion, hemostasis, and chemokine signaling. However, the intrinsic feature of sulfated protein remains elusive and remains to be delineated. This investigation presents SulfoSite, which is a computational method based on a support vector machine (SVM) for predicting protein sulfotyrosine sites. The approach was developed to consider structural information such as concerning the secondary structure and solvent accessibility of amino acids that surround the sulfotyrosine sites. One hundred sixty‐two experimentally verified tyrosine sulfation sites were identified using UniProtKB/SwissProt release 53.0. The results of a five‐fold cross‐validation evaluation suggest that the accessibility of the solvent around the sulfotyrosine sites contributes substantially to predictive accuracy. The SVM classifier can achieve an accuracy of 94.2% in five‐fold cross validation when sequence positional weighted matrix (PWM) is coupled with values of the accessible surface area (ASA). The proposed method significantly outperforms previous methods for accurately predicting the location of tyrosine sulfation sites. © 2009 Wiley Periodicals, Inc. J Comput Chem, 2009     

Exploration of Potential Tumor Markers for Lung Adenocarcinomas by Two‐Dimensional Gel Electrophoresis Coupled with Nano‐LC/MS/MS

To explore the potential tumor markers for lung adenocarcinoma, two‐dimensional gel electrophoresis (2DE) coupled with nano‐LC/MS/MS was used to analyze the differentially expressed proteins in 10 surgical resected lung adenocarcinoma tissues. 16 proteins were significantly different between the cancer tissue and adjacent normal tissue. Galectin‐1, peroxiredoxin II (Prx II), proapolipoprotein, glyceraldehyde‐3‐phosphate dehydrogenase (GAPDH), aldolase A, enolase 1, neuropolypeptide h3, Prx V, cyclophilin A, vimentin, protein disulfide isomerase (PDI), tropomyosin 3 (TPM 3), glutathione S‐transferase Pi (GST‐Pi), manganese superoxide dismutase (MnSOD), and cofilin 1 were up‐regulated in the cancer tissue. On the other hand, profilin was down‐regulated in the cancer tissue. Among these proteins, six proteins were validated by Western blot analysis. The identified proteins contributing to the spectrum of cancer progression may be used as potential diagnostic biomarkers for lung adenocarcinomas.     

Enantioseparation of doubly functionalized polar norbornenes by HPLC and their ruthenium‐catalyzed ring‐opening metathesis polymerization

Doubly fuctionalized polar norbornenes bearing the cyano and ester groups in 2,3‐positions are synthesized and enantiomers are separated by high performance liquid chromatography (HPLC) with a chiral stationary phase. These optically active monomers are polymerized by ruthenium carbene catalysts, and high yields of the polymers were obtained. The chiral monomer bearing ethyl ester gave an optically active polymer of lower, but opposite sign of optical rotation (monomer [α]_D = +61.0°, polymer [α]_D = ?3.1°). The circular dichroism (CD) of the obtained chiral polymers gave a Cotton effect. © 2009 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 48: 485–491, 2010     

Detection of discriminative sequence motifs in proteins obtained from prokaryotes grown at various temperatures

Recent investigations on the stability of proteins have demonstrated various structural factors, but few have considered sequence factors such as protein motifs. These motifs represent highly conserved regions and describe critical regions that may only exist on proteins that remain functional at high temperatures. This investigation presents a method for identifying and comparing corresponding mesophilic and thermophilic sequence motifs between protein families. Discriminative motifs that are conserved only in the mesophilic or thermophilic subfamily are identified. Analysis of the results shows that, although the subfamilies of most protein families share similar motifs, some discriminative motifs are present in particular thermophilic/mesophilic subfamilies. The thermophilic discriminative motifs are conserved only in thermophilic organisms, revealing that physiochemical principles support thermostability.     

Optical and electroluminescent properties of novel poly(aryl ether)s with isolated carbazole and p‐quaterphenyl fluorophores

We report the optical and electroluminescent properties of four novel poly(aryl ether)s ( P1 – P4 ) consisting of alternate isolated hole‐transporting [carbazole or 3,6‐bis(styryl)carbazole] and electron‐transporting [dicyano‐p‐quaterphenyl or bis(trifluoromethyl)‐p‐quaterphenyl] fluorophores. The photoluminescence (PL) spectra of the four polymeric films show maximum peaks around 407–413 nm for P1 , P2 and 442–447 nm for P3 , P4 . The PL spectra of P1 ～ P4 are dependent on the composition of the two isolated fluorophores. According to the observation of relative quantum yield in poor solvent (cyclohexane), P2 containing more bulky trifluoromethyl groups in p‐quaterphenyl segments prevented aggregate quenching processes more than P1 . Compared with P1 and P2 with carbazole segments, P3 and P4 with 3,6‐bis(styryl)carbazole segments exhibited less interchain interaction and a low threshold electric field in a single‐layer device. The p‐quaterphenyl and carbazole [or 3,6‐bis(styryl)carbazole] segments were regarded as electron‐transporting and hole‐transporting units, respectively, in the single‐layer light‐emitting diodes (Al/ P1 – P4 /ITO). In the double‐layer device (ITO/MEH‐PPV/ P2 /Al), the maximum luminance was doubled, and the threshold electric fields diminished because P2 functioned as an electron‐transporting and hole‐blocking layer. Furthermore, the voltage‐tunable multicolor emission from orange to green was observed. © 2003 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 42: 333–340, 2004     

Recyclable and Ligandless Suzuki Coupling Catalyzed by Carbon Nanotube‐Supported Palladium Nanoparticles Synthesized in Supercritical Fluid

Carbon nanotube–supported palladium nanoparticles prepared by a supercritical fluid deposition method show high activities for catalyzing Suzuki coupling reactions, and the catalysts can be recycled and reused at least six times without losing activity.