scholarly journals Crystal structure of gluconate 5-dehydrogenase from Lentibacter algarum

Author(s):  
Dengke Tian ◽  
Xueqi Fu ◽  
Wenqiang Cao ◽  
Hong Yuan

Gluconate 5-dehydrogenase (Ga5DH; EC 1.1.1.69) from Lentibacter algarum (LaGa5DH) was recombinantly expressed in Escherichia coli and purified to homogeneity. The protein was crystallized and the crystal structure was solved at 2.1 Å resolution. The crystal belonged to the monoclinic system, with space group P1 and unit-cell parameters a = 55.42, b = 55.48, c = 79.16 Å, α = 100.51, β = 105.66, γ = 97.99°. The structure revealed LaGaDH to be a tetramer, with each subunit consisting of six α-helices and three antiparallel β-hairpins. LaGa5DH has high structural similarity to other Ga5DH proteins, demonstrating that this enzyme is highly conserved.

2012 ◽  
Vol 67 (5) ◽  
pp. 491-494 ◽  
Author(s):  
Dmitrijs Stepanovs ◽  
Anatoly Mishnev

Sildenafil citrate monohydrate, well known as Viagra®, is a drug for the treatment of erectile dysfunction. Here we present the X-ray crystal structure of the sildenafil base, C22H30N6O4S. The compound crystallizes in the monoclinic system, space group P21/c with the unit cell parameters a = 17:273(1), b=17:0710(8), c=8:3171(4) Å , b =99:326(2), Z = 4, V = 2420:0(3) Å3. A comparison with the known crystal structures of sildenafil citrate monohydrate and sildenafil saccharinate is also presented.


2014 ◽  
Vol 2014 ◽  
pp. 1-4
Author(s):  
Elango Kandasamy

Compound 1-Methyl-3-(2-pyridyl)imidazolium hexafluorophosphate was crystallized in monoclinic system with space group P21/c and unit cell parameters a=7.3740(8) Å, b=15.5931(16) Å, c=10.4787(11) Å, β= 105.3102°, and  ν=1162.12Å3. The obtained solid state structure of 1-Methyl-3-(2-pyridyl)imidazolium hexafluorophosphate shows CH⋯F type weak interactions and was analyzed.


2020 ◽  
Vol 84 (5) ◽  
pp. 699-704
Author(s):  
Luca Bindi ◽  
Andrew C. Roberts ◽  
Cristian Biagioni

AbstractAlstonite, BaCa(CO3)2, is a mineral described almost two centuries ago. It is widespread in Nature and forms magnificent cm-sized crystals. Notwithstanding, its crystal structure was still unknown. Here, we report the crystal-structure determination of the mineral and discuss it in relationship to other polymorphs of BaCa(CO3)2. Alstonite is trigonal, space group P31m, with unit-cell parameters a = 17.4360(6), c = 6.1295(2) Å, V = 1613.80(9) Å3 and Z = 12. The crystal structure was solved and refined to R1 = 0.0727 on the basis of 4515 reflections with Fo > 4σ(Fo) and 195 refined parameters. Alstonite is formed by the alternation, along c, of Ba-dominant and Ca-dominant layers, separated by CO3 groups parallel to {0001}. The main take-home message is to show that not all structure determinations of minerals/compounds can be solved routinely. Some crystals, even large ones displaying excellent diffraction quality, can be twinned in complex ways, thus making their study a crystallographic challenge.


Minerals ◽  
2019 ◽  
Vol 9 (8) ◽  
pp. 486 ◽  
Author(s):  
Andrey A. Zolotarev ◽  
Elena S. Zhitova ◽  
Maria G. Krzhizhanovskaya ◽  
Mikhail A. Rassomakhin ◽  
Vladimir V. Shilovskikh ◽  
...  

The technogenic mineral phases NH4MgCl3·6H2O and (NH4)2Fe3+Cl5·H2O from the burned dumps of the Chelyabinsk coal basin have been investigated by single-crystal X-ray diffraction, scanning electron microscopy and high-temperature powder X-ray diffraction. The NH4MgCl3·6H2O phase is monoclinic, space group C2/c, unit cell parameters a = 9.3091(9), b = 9.5353(7), c = 13.2941(12) Å, β = 90.089(8)° and V = 1180.05(18) Å3. The crystal structure of NH4MgCl3·6H2O was refined to R1 = 0.078 (wR2 = 0.185) on the basis of 1678 unique reflections. The (NH4)2Fe3+Cl5·H2O phase is orthorhombic, space group Pnma, unit cell parameters a = 13.725(2), b = 9.9365(16), c = 7.0370(11) Å and V = 959.7(3) Å3. The crystal structure of (NH4)2Fe3+Cl5·H2O was refined to R1 = 0.023 (wR2 = 0.066) on the basis of 2256 unique reflections. NH4MgCl3·6H2O is stable up to 90 °C and then transforms to the less hydrated phase isotypic to β-Rb(MnCl3)(H2O)2 (i.e., NH4MgCl3·2H2O), the latter phase being stable up to 150 °C. (NH4)2Fe3+Cl5·H2O is stable up to 120 °C and then transforms to an X-ray amorphous phase. Hydrogen bonds provide an important linkage between the main structural units and play the key role in determining structural stability and physical properties of the studied phases. The mineral phases NH4MgCl3·6H2O and (NH4)2Fe3+Cl5·H2O are isostructural with natural minerals novograblenovite and kremersite, respectively.


Author(s):  
Janet Newman ◽  
Julie A. Sharp ◽  
Ashwantha Kumar Enjapoori ◽  
John Bentley ◽  
Kevin R. Nicholas ◽  
...  

Monotreme lactation protein (MLP) is a recently identified protein with antimicrobial activity. It is present in the milk of monotremes and is unique to this lineage. To characterize MLP and to gain insight into the potential role of this protein in the evolution of lactation, the crystal structure of duck-billed platypus (Ornithorhynchus anatinus) MLP was determined at 1.82 Å resolution. This is the first structure to be reported for this novel, mammalian antibacterial protein. MLP was expressed as a FLAG epitope-tagged protein in mammalian cells and crystallized readily, with at least three space groups being observed (P1,C2 andP21). A 1.82 Å resolution native data set was collected from a crystal in space groupP1, with unit-cell parametersa= 51.2,b= 59.7,c= 63.1 Å, α = 80.15, β = 82.98, γ = 89.27°. The structure was solved by SAD phasing using a protein crystal derivatized with mercury in space groupC2, with unit-cell parametersa= 92.7,b = 73.2,c= 56.5 Å, β = 90.28°. MLP comprises a monomer of 12 helices and two short β-strands, with much of the N-terminus composed of loop regions. The crystal structure of MLP reveals no three-dimensional similarity to any known structures and reveals a heretofore unseen fold, supporting the idea that monotremes may be a rich source for the identification of novel proteins. It is hypothesized that MLP in monotreme milk has evolved to specifically support the unusual lactation strategy of this lineage and may have played a central role in the evolution of these mammals.


2018 ◽  
Vol 33 (3) ◽  
pp. 216-224 ◽  
Author(s):  
V. D. Zhuravlev ◽  
A. P. Tyutyunnik ◽  
A. Y. Chufarov ◽  
N. I. Lobachevskaya ◽  
A. A. Velikodnyi

Polycrystalline samples of Ca2Zn2(V4O14) (I) and Pb2Cd2(V3O10)(VO4) (II) were synthesized using the nitrate–citrate method (I) and conventional solid state reaction (II). The structural refinement based on X-ray powder diffraction data showed that the crystal structure of (I) is characterized by monoclinic symmetry with unit-cell parameters a = 6.8044(1) Å, b = 14.4876(3) Å, c = 11.2367(2) Å, β = 99.647(1)° [space group P21/c (No. 14), Z = 4], and the crystal structure of (II) is triclinic with unit-cell parameters a = 7.03813(6) Å, b = 12.9085(1) Å, c = 6.99961(5) Å, α = 90.7265(5)°, β = 96.3789(5)°, γ = 94.9530(6)°, V = 629.470(8) Å3 [space group P$\bar 1$ (No. 2), Z = 2].


2007 ◽  
Vol 63 (3) ◽  
pp. o1464-o1466 ◽  
Author(s):  
Wiesław Prukała ◽  
Bogdan Marciniec ◽  
Maciej Kubicki

The crystal structure of tetra-n-butylammonium iodide, C16H36N+·I−, has been redetermined at room temperature and at 100 (1) K. In the low-quality (R = 0.142) room-temperature determination by Wang, Habenschuss, Xenopoulos & Wunderlich [Mol. Cryst. Liq. Cryst. Sci. Technol. Sect. A (1995), 264, 115–129], this structure was described as crystallizing in the space group C2 with Z′ = 2. Our results prove that the correct space group is C2/c (with the same unit-cell parameters as in the original determination) at both temperatures. In the crystal structure, the iodide anions fill the voids in the grid-like cationic structure. Weak C—H...I interactions (eight per anion) strengthen this packing.


1999 ◽  
Vol 55 (7) ◽  
pp. 1368-1369 ◽  
Author(s):  
Nicholas C. Blackwell ◽  
Paul M. Cullis ◽  
Ronald A. Cooper ◽  
Tina Izard

2-Dehydro-3-deoxygalactarate (DDG) aldolase (E.C. 4.1.2.20) catalyzes the reversible aldol cleavage of DDG and 2-dehydro-3-deoxyglucarate to pyruvate and tartronic semialdehyde. Rhombohedral crystals of recombinant DDG aldolase from Escherichia coli K-12 were obtained. The crystals belong to space group R32 with unit-cell parameters a = 93 Å, α = 85°. The crystals diffract to beyond 1.8 Å resolution on a Cu Kα rotating-anode generator. The asymmetric unit is likely to contain two molecules, corresponding to a packing density of 1.34 Å3 Da−1.


2015 ◽  
Vol 79 (2) ◽  
pp. 321-335 ◽  
Author(s):  
Stuart J. Mills ◽  
Andrew G. Christy ◽  
Fernando Colombo ◽  
Jason R. Price

AbstractWe report the single-crystal average structure of cyanotrichite, Cu4Al2[SO4](OH)12(H2O)2, from the Maid of Sunshine mine, Arizona, USA. Cyanotrichite crystallizes in space group C2/m, with the unit-cell parameters a = 12.625(3), b = 2.8950(6), c = 10.153(2) Å and β = 92.17(3)o. All non-hydrogen atoms were located and refined to R1 = 0.0394 for all 584 observed reflections [Fo > 4σFo] and 0.0424 for all 622 unique reflections. The cyanotrichite structure consists of a principal building unit of a three-wide [Cu2Al(OH)6] ribbon of edge-sharing Cu and Al polyhedra || b, similar to that found for camerolaite. The ribbons lie in layers || (001) and between these layers, while SO4 tetrahedra and H2O molecules form rods running || b. A hydrogen-bonding scheme is also proposed.A sample of cyanotrichite from the Cap Garonne mine, Le Pradet, France, showed a 4b superstructure with the following unit cell: space group P2/m, a = 12.611(2) Å, b = 11.584(16) = 4 × 2.896(4) Å, c = 10.190(1) Å and β = 92.29(6)o. The supercell could not be refined in detail, but nevertheless imposes constraints on the local structure in that while the space-group symmetry prevents full order of SO4 and H2O in the 4b supercell, it requires that the sequence of species along any given rod is [-SO4-SO4-(H2O)2-(H2O)2-] rather than [-SO4-(H2O)2-SO4-(H2O)2-].


2018 ◽  
Vol 33 (1) ◽  
pp. 62-65
Author(s):  
Martin Etter

Commercially available trisodium hexachlororhodate (Na3RhCl6) was dehydrated and characterized by laboratory X-ray powder diffraction. The crystal structure is isostructural to the Na3CrCl6 structure type with space group P$\bar 31$c. Unit-cell parameters are a = 6.8116(1) Å, c = 11.9196(2) Å, V = 478.95(2) Å3, and Z = 2.


Sign in / Sign up

Export Citation Format

Share Document