scholarly journals Expression, purification, crystallization and X-ray crystallographic analysis of the periplasmic binding protein VatD fromVibrio vulnificusM2799

2015 ◽  
Vol 71 (8) ◽  
pp. 1078-1082
Author(s):  
Nao Miyano ◽  
Tomoko Igarashi ◽  
Hiroaki Kawano ◽  
Katsushiro Miyamoto ◽  
Takahiro Tsuchiya ◽  
...  
Keyword(s):  
Vibrio Vulnificus ◽  
Binding Protein ◽  
Crystallographic Analysis ◽  
Marine Microorganism ◽  
Periplasmic Binding Protein ◽  
Crystal Forms ◽  
Space Group ◽  
X Ray ◽  
Desferrioxamine B ◽  
The Difference

Vibrio vulnificusis a halophilic marine microorganism which causes gastroenteritis and primary septicaemia in humans. An important factor that determines the survival ofV. vulnificusin the human body is its ability to acquire iron. VatD is a periplasmic siderophore-binding protein fromV. vulnificusM2799. The current study reports the expression, purification and crystallization of VatD. Crystals of both apo VatD and a VatD–desferrioxamine B–Fe3+(VatD–FOB) complex were obtained. The crystal of apo VatD belonged to space groupP6422, while the crystal of the VatD–FOB complex belonged to space groupP21. The difference in the two crystal forms could be caused by the binding of FOB to VatD.

Crystallization and preliminary X-ray study of two crystal forms of Klebsiella oxytoca diol dehydratase–cyanocobalamin complex

1999 ◽  
Vol 55 (4) ◽  
pp. 907-909 ◽  
Author(s):  
Jun Masuda ◽  
Tetsuya Yamaguchi ◽  
Takamasa Tobimatsu ◽  
Tetsuo Toraya ◽  
Kyoko Suto ◽  
...  
Keyword(s):  
Klebsiella Oxytoca ◽  
Crystal Form ◽  
Unit Cell ◽  
Unit Cell Parameters ◽  
Crystal Forms ◽  
Space Group ◽  
X Ray ◽  
Cell Parameters ◽  
Diol Dehydratase ◽  
Replacement Method

Two crystal forms of Klebsiella oxytoca diol dehydratase complexed with cyanocobalamin have been obtained and preliminary crystallographic experiments have been performed. The crystals belong to two different space groups, depending on the crystallization conditions. One crystal (form I) belongs to space group P212121 with unit-cell parameters a = 76.2, b = 122.3, c = 209.6 Å, and diffracts to 2.2 Å resolution using an X-ray beam from a synchrotron radiation source. The other crystal (form II) belongs to space group P21 with unit-cell parameters a = 75.4, b = 132.7, c = 298.8 Å, β = 91.9°, and diffracts to 3.0 Å resolution. For the purpose of structure determination, a heavy-atom derivative search was carried out and some mercuric derivatives were found to be promising. Structure analysis by the multiple isomorphous replacement method is now under way.

Crystallization and preliminary X-ray crystallographic analysis of the Pseudomonas aeruginosa cyclohexadienyl dehydratase

1999 ◽  
Vol 55 (2) ◽  
pp. 539-541
Author(s):  
Palangpon Kongsaeree ◽  
Jun Liang ◽  
Roy A. Jensen ◽  
Jon Clardy
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Crystal Form ◽  
High Energy ◽  
Crystallographic Analysis ◽  
Unit Cell ◽  
Space Group ◽  
X Ray ◽  
Cell Dimensions ◽  
Unit Cell Dimensions

The title protein has been crystallized in a new crystal form. The crystals belong to the cubic space group P4132 (or P4332) with unit-cell dimensions a = b = c = 126.1 Å at 100 K and typically diffract beyond 1.6 Å at the Cornell High Energy Synchotron Source (CHESS) A1 beamline.

Compressibility to 7 GPa at 298 K of the protonated octahedral framework mineral burtite, CaSn(OH)6

2002 ◽  
Vol 66 (3) ◽  
pp. 431-440 ◽  
Author(s):  
M. D. Welch ◽  
W. A. Crichton
Keyword(s):  
Hydrogen Bonding ◽  
Equation Of State ◽  
Major Effect ◽  
Third Order ◽  
Space Group ◽  
X Ray ◽  
The Difference ◽  
Murnaghan Equation ◽  
Hydrogen Bonded

AbstractThe equation of state of synthetic deuterated burtite, CaSn(OD)6, has been determined to 7.25 GPa at 298 K by synchrotron X-ray powder diffraction. Fitting to a third-order Birch-Murnaghan equation of state gives K0 = 44.7(9) GPa and K0′ = 5.3(4). A second-order fit gives K0 = 47.4(4) GPa. Within experimental error the two fits are indistinguishable over the pressure range studied. The decrease in the a parameter with pressure is smooth and no phase transitions were observed. Burtite is much more compressible (by a factor of three or four) than CaSnO3 and CdSnO3 perovskites, indicating that the absence of a cavity cation has a major effect upon the compressibility of the octahedral framework. Burtite is also markedly more compressible than the closely-related mineral stottite FeGe(OH)6 (K0 = 78 GPa). Their different compressibilities correlate with the relative compressibilities of stannate and germanate perovskites. Although different octahedral compressions are likely to be the primary reason for the different compressibilities of burtite and stottite, we also consider the possible secondary role of hydrogen-bonding topology in affecting the compressibilities of protonated octahedral frameworks. Burtite and stottite have different hydrogen-bonding topologies due to their different octahedral-tilt system. Burtite, space group Pn3̄ and tilt system a+a+a+, has a hydrogen-bonded network of linked four-membered rings of O-H…O linkages, whereas stottite, space group P42/n and tilt system a+a+c−, has <100> O-H…O crankshafts and isolated four-membered rings. These different hydrogen-bonded configurations lead to different bracing of the empty cavity sites by the O-H…O linkages and very different hydrogen-bonding connectivities in these two minerals that may also enhance the difference between their compressibilities.

scholarly journals Overexpression, crystallization and preliminary X-ray crystallographic analysis of the ectoine hydroxylase fromSphingopyxis alaskensis

2014 ◽  
Vol 70 (4) ◽  
pp. 493-496 ◽  
Author(s):  
Astrid Hoeppner ◽  
Nils Widderich ◽  
Erhard Bremer ◽  
Sander H. J. Smits
Keyword(s):  
Crystallographic Analysis ◽  
Diffusion Method ◽  
Oxidative Decarboxylation ◽  
Expression And Purification ◽  
Crystal Forms ◽  
X Ray ◽  
Mononuclear Iron ◽  
Vapour Diffusion ◽  
Purification Protocol

The ectoine hydroxylase (EctD) is a member of the non-haem-containing iron(II)- and 2-oxoglutarate-dependent dioxygenase superfamily. Its mononuclear iron centre is a prerequisite for the activity of this enzyme and promotes the O2-dependent oxidative decarboxylation of 2-oxoglutarate, which is coupled to a two-electron oxidation of the substrate ectoine to yield 5-hydroxyectoine. An expression and purification protocol for the EctD enzyme fromSphingopyxis alaskensiswas developed and the protein was crystallized using the sitting-drop vapour-diffusion method. This resulted in two different crystal forms, representing the apo and iron-bound forms of the enzyme.

Preliminary X-ray crystallographic analysis of a Ca2+-binding protein human S100A1

2001 ◽  
Vol 57 (6) ◽  
pp. 882-883 ◽  
Author(s):  
Zhilong Wang ◽  
Hongmei Zhang ◽  
Yi Ding ◽  
Guozhen Wang ◽  
Xiaodong Wang ◽  
...  
Keyword(s):  
Binding Protein ◽  
Crystallographic Analysis ◽  
X Ray

scholarly journals X-ray crystallographic analysis of adipocyte fatty acid binding protein (aP2) modified with 4-hydroxy-2-nonenal

2010 ◽  
Vol 19 (8) ◽  
pp. 1480-1489 ◽  
Author(s):  
Kristina Hellberg ◽  
Paul A. Grimsrud ◽  
Andrew C. Kruse ◽  
Leonard J. Banaszak ◽  
Douglas H. Ohlendorf ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Fatty Acid Binding Protein ◽  
Binding Protein ◽  
Crystallographic Analysis ◽  
Fatty Acid Binding ◽  
X Ray ◽  
Acid Binding Protein

scholarly journals Crystallisation and Preliminary Crystallographic Analysis of Helicobacter pylori Periplasmic Binding Protein YckK

Crystals ◽  
2017 ◽  
Vol 7 (11) ◽  
pp. 330 ◽  
Author(s):  
Mohammad Rahman ◽  
Daniel Germantsis ◽  
Mayra Machuca ◽  
Abu Ud-Din ◽  
Anna Roujeinikova
Keyword(s):  
Helicobacter Pylori ◽  
Binding Protein ◽  
Crystallographic Analysis ◽  
Periplasmic Binding Protein

scholarly journals Iron-Utilization System in Vibrio vulnificus M2799

Marine Drugs ◽  
2021 ◽  
Vol 19 (12) ◽  
pp. 710
Author(s):  
Katsushiro Miyamoto ◽  
Hiroaki Kawano ◽  
Naoko Okai ◽  
Takeshi Hiromoto ◽  
Nao Miyano ◽  
...  
Keyword(s):  
Outer Membrane ◽  
Vibrio Vulnificus ◽  
Binding Protein ◽  
Membrane Receptors ◽  
Outer Membrane Receptor ◽  
Ferric Ions ◽  
Periplasmic Binding Protein ◽  
Serious Infections ◽  
Periplasmic Binding Proteins ◽  
Export System

Vibrio vulnificus is a Gram-negative pathogenic bacterium that causes serious infections in humans and requires iron for growth. A clinical isolate, V. vulnificus M2799, secretes a catecholate siderophore, vulnibactin, that captures ferric ions from the environment. In the ferric-utilization system in V. vulnificus M2799, an isochorismate synthase (ICS) and an outer membrane receptor, VuuA, are required under low-iron conditions, but alternative proteins FatB and VuuB can function as a periplasmic-binding protein and a ferric-chelate reductase, respectively. The vulnibactin-export system is assembled from TolCV1 and several RND proteins, including VV1_1681. In heme acquisition, HupA and HvtA serve as specific outer membrane receptors and HupB is a sole periplasmic-binding protein, unlike FatB in the ferric-vulnibactin utilization system. We propose that ferric-siderophore periplasmic-binding proteins and ferric-chelate reductases are potential targets for drug discovery in infectious diseases.

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