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Structural Consequences (structural + consequence)
Selected AbstractsNew Approaches to 12-Coordination: Structural Consequences of Steric Stress, Lanthanoid Contraction and Hydrogen BondingEUROPEAN JOURNAL OF INORGANIC CHEMISTRY, Issue 18 2010Anthony S. R. Chesman Abstract The anionic dinitrile ligand dicyanonitrosomethanide (dcnm), C(CN)2(NO),, and the anion resulting from its addition product with water, carbamoylcyanonitrosomethanide (ccnm), C(CN)(CONH2)(NO),, have been incorporated into lanthanoid complexes and display unusual ,2(N,O) nitroso coordination modes. (Et4N)3[Ln(ccnm)6] (1Ln; 1Ln = 1La, 1Ce, 1Pr, 1Nd, 1Sm) and (Me4N)3[Ln(ccnm)6] (2Ln; 2Ln = 2La, 2Ce, 2Pr, 2Nd) are systems containing 12-coordinate homoleptic trianionic lanthanoidate complexes. The nitroso groups of the ccnm ligands form three-membered ring chelates with the lanthanoid metal centre, with the asymmetry of the nitroso ,2 interactions dependent upon the intramolecular N,H···O=N hydrogen bonding. Additional intermolecular hydrogen bonding interactions exist between adjacent amide and nitrile groups giving rise to 3D ,-Po and 6,8-connected (412.63)(420.68) networks in 1Ln and 2Ln, respectively. The compounds (Me4N)3[Ln(dcnm)6] (3Ln; 3Ln = 3La, 3Ce, 3Nd, 3Sm) also contain a 12-coordinate trianionic lanthanoidate complex with the nitroso group exhibiting a highly symmetrical ,2 interaction. The sterically crowded environments of [Ln(18-crown-6)(dcnm)3] (4Ln; 4Ln = 4La, 4Ce, 4Pr, 4Nd) result in a shift towards a more asymmetric ,2 bonding of the nitroso group with decrease in the Ln3+ radius. There is a corresponding increase of the Ln,O,N angle, and one ligand is ,1(O) binding in 4Nd. The dcnm ligands in the discrete complexes [La(phen)3(dcnm)(3,x)Clx], x , 0.25 (5) (phen = 1,10-phenanthroline), (Et4N)[Ce(phen)2(dcnm)4] (6a/b, 6c) and [Ce(phen)2(dcnm)Cl2H2O] (7) display a variety of coordination modes. Complex 5 has 1D chains formed by ,,, stacking of adjacent phen co-ligands. Complexes 6 contain the monoanionic complex [Ce(phen)2(dcnm)4], with two geometric isomers present in the crystal structure of 6a/b. Complex 7 forms extended 1D chains via hydrogen bonding between coordinated water and chloride atoms and an extensive array of face-to-face , interactions. [source] Novel UBA Domain Mutations of SQSTM1 in Paget's Disease of Bone: Genotype Phenotype Correlation, Functional Analysis, and Structural ConsequencesJOURNAL OF BONE AND MINERAL RESEARCH, Issue 7 2004Lynne J Hocking Abstract Three novel missense mutations of SQSTM1 were identified in familial PDB, all affecting the UBA domain. Functional and structural analysis showed that disease severity was related to the type of mutation but was unrelated to the polyubiquitin-binding properties of the mutant UBA domain peptides. Introduction: Mutations affecting the ubiquitin-associated (UBA) domain of Sequestosome 1 (SQSTM1) gene have recently been identified as a common cause of familial Paget's disease of bone (PDB), but the mechanisms responsible are unclear. We identified three novel SQSTM1 mutations in PDB, conducted functional and structural analyses of all PDB-causing mutations, and studied the relationship between genotype and phenotype. Materials and Methods: Mutation screening of the SQSTM1 gene was conducted in 70 kindreds with familial PDB. We characterized the effect of the mutations on structure of the UBA domain by protein NMR, studied the effects of the mutant UBA domains on ubiquitin binding, and looked at genotype-phenotype correlations. Results and Conclusions: Three novel missense mutations affecting the SQSTM1 UBA domain were identified, including a missense mutation at codon 411 (G411S), a missense mutation at codon 404 (M404V), and a missense mutation at codon 425 (G425R). We also identified a deletion leading to a premature stop codon at 394 (L394X). None of the mutations were found in controls. Structural analysis showed that M404V and G425R involved residues on the hydrophobic surface patch implicated in ubiquitin binding, and consistent with this, the G425R and M404V mutants abolished the ability of mutant UBA domains to bind polyubiquitin chains. In contrast, the G411S and P392L mutants bound polyubiquitin chains normally. Genotype-phenotype analysis showed that patients with truncating mutations had more extensive PDB than those with missense mutations (bones involved = 6.05 ± 2.71 versus 3.45 ± 2.46; p < 0.0001). This work confirms the importance of UBA domain mutations of SQSTM1 as a cause of PDB but shows that there is no correlation between the ubiquitin-binding properties of the different mutant UBA domains and disease occurrence or extent. This indicates that the mechanism of action most probably involves an interaction between SQSTM1 and a hitherto unidentified protein that modulates bone turnover. [source] Structural consequences of site-directed mutagenesis in flexible protein domainsFEBS JOURNAL, Issue 8 200156)S mutant of RhoGDI, NMR characterization of the L(5 The guanine dissociation inhibitor RhoGDI consists of a folded C-terminal domain and a highly flexible N-terminal region, both of which are essential for biological activity, that is, inhibition of GDP dissociation from Rho GTPases, and regulation of their partitioning between membrane and cytosol. It was shown previously that the double mutation L55S/L56S in the flexible region of RhoGDI drastically decreases its affinity for Rac1. In the present work we study the effect of this double mutation on the conformational and dynamic properties of RhoGDI, and describe the weak interaction of the mutant with Rac1 using chemical shift mapping. We show that the helical content of the region 45,56 of RhoGDI is greatly reduced upon mutation, thus increasing the entropic penalty for the immobilization of the helix, and contributing to the loss of binding. In contrast to wild-type RhoGDI, no interaction with Rac1 could be identified for amino-acid residues of the flexible domain of the mutant RhoGDI and only very weak binding was observed for the folded domain of the mutant. The origins of the effect of the L55S/L56S mutation on the binding constant (decreased by at least three orders of magnitude relative to wild-type) are discussed with particular reference to the flexibility of this part of the protein. [source] Structural consequences of hen egg-white lysozyme orthorhombic crystal growth in a high magnetic field: validation of X-ray diffraction intensity, conformational energy searching and quantitative analysis of B factors and mosaicityACTA CRYSTALLOGRAPHICA SECTION D, Issue 3 2005Shinya Saijo A novel method has been developed to improve protein-crystal perfection during crystallization in a high magnetic field and structural studies have been undertaken. The three-dimensional structure of orthorhombic hen egg-white (HEW) lysozyme crystals grown in a homogeneous and static magnetic field of 10,T has been determined and refined to a resolution of 1.13,Å and an R factor of 17.0%. The 10,T crystals belonged to space group P212121, with unit-cell parameters a = 56.54,(3), b = 73.86,(6), c = 30.50,(2),Å and one molecule per asymmetric unit. A comparison of the structures of the 0,T and 10,T crystals has been carried out. The magnitude of the structural changes, with a root-mean-square deviation value of 0.75,Å for the positions of all protein atoms, is similar to that observed when an identical protein structure is resolved in two different crystalline lattices. The structures remain similar, with the exception of a few residues e.g. Arg68, Arg73, Arg128 and Gln121. The shifts of the arginine residues result in very significant structural fluctuations, which can have large effects on a protein's crystallization properties. The high magnetic field contributed to an improvement in diffraction intensity by (i) the displacement of the charged side chains of Arg68 and Arg73 in the flexible loop and of Arg128 at the C-terminus and (ii) the removal of the alternate conformations of the charged side chains of Arg21, Lys97 or Arg114. The improvement in crystal perfection might arise from the magnetic effect on molecular orientation without structural change and differences in molecular interactions. X-ray diffraction and molecular-modelling studies of lysozyme crystals grown in a 10,T field have indicated that the field contributes to the stability of the dihedral angle. The average difference in conformational energy has a value of ,578,kJ,mol,1 per charged residue in favour of the crystal grown in the magnetic field. For most protein atoms, the average B factor in the 10,T crystal shows an improvement of 1.8,Å2 over that for the 0,T control; subsequently, the difference in diffraction intensity between the 10,T and 0,T crystals corresponds to an increase of 22.6% at the resolution limit. The mosaicity of the 10,T crystal was better than that of the 0,T crystal. More highly isotropic values of 0.0065, 0.0049 and 0.0048° were recorded along the a, b and c axes, respectively. Anisotropic mosaicity analysis indicated that crystal growth is most perfect in the direction that corresponds to the favoured growth direction of the crystal, and that the crystal grown in the magnetic field had domains that were three times the volume of those of the control crystal. Overall, the magnetic field has improved the quality of these crystals and the diffracted intensity has increased significantly with the magnetic field, leading to a higher resolution. [source] Tetrahydropyran-Amino Acids: Novel Building Blocks for Gramicidin-Hybrid Ion ChannelsEUROPEAN JOURNAL OF ORGANIC CHEMISTRY, Issue 12 2006Sabine Schröder Abstract The stereoselective synthesis of a cis -2,6-disubstituted tetrahydropyran bearing a ,-amino acid has been achieved starting from N -Boc-leucinal. The THP amino acid was incorporated into peptide sequences and the structural consequences were studied by X-ray crystallography and NMR analysis. Single-channel current measurements showed that the THP amino acid is a suitable substitute for positions 11 and 12 of the gramicidin ion channel. The resulting hybrid ion channel revealed Eisenman I ion selectivity and an ion-dependence of the channel dwell time. (© Wiley-VCH Verlag GmbH & Co. KGaA, 69451 Weinheim, Germany, 2006) [source] | ||||||||||