Response of a Designed Metalloprotein to Changes in Metal Ion Coordination, Exogenous Ligands, and Active Site Volume Determined by X-ray Crystallography

2005 ◽  
Vol 127 (49) ◽  
pp. 17266-17276 ◽  
Author(s):  
Silvano Geremia ◽  
Luigi Di Costanzo ◽  
Lucio Randaccio ◽  
Donald E. Engel ◽  
Angela Lombardi ◽  
...  
2001 ◽  
Vol 10 (8) ◽  
pp. 1669-1676 ◽  
Author(s):  
Demetres D. Leonidas ◽  
Gayatri B. Chavali ◽  
Anwar M. Jardine ◽  
Songlin Li ◽  
Robert Shapiro ◽  
...  

2014 ◽  
Vol 70 (a1) ◽  
pp. C1211-C1211
Author(s):  
Joseph Ng ◽  
Ronny Hughes ◽  
Michelle Morris ◽  
Leighton Coates ◽  
Matthew Blakeley ◽  
...  

Soluble inorganic pyrophosphatase (IPPase) catalyzes the hydrolysis of inorganic pyrophosphate (PPi) to form orthophosphate (Pi). The action of this enzyme shifts the overall equilibrium in favor of synthesis during a number of ATP-dependent cellular processes such as in the polymerization of nucleic acids, production of coenzymes and proteins and sulfate assimilation pathways. Two Neutron crystallographic (2.10-2.50Å) and five high-resolution X-ray (0.99Å-1.92Å) structures of the archaeal IPPase from Thermococcus thioreducens have been determined under both cryo and room temperatures. The structures determined include the recombinant IPPase bound to Mg+2, Ca+2, Br-, SO2-2 or PO4-2 involving those with non-hydrolyzed and hydrolyzed pyrophosphate complexes. All the crystallographic structures provide snapshots of the active site corresponding to different stages of the hydrolysis of inorganic pyrophosphate. As a result, a structure-based model of IPPase catalysis is devised showing the enzyme's low-energy conformations, hydration states, movements and nucleophile generation within the active site.


1992 ◽  
Vol 70 (3) ◽  
pp. 726-731 ◽  
Author(s):  
Paul K. Hurlburt ◽  
Oren P. Anderson ◽  
Steven H. Strauss

Addition of B(OTeF5)3 to TIOTeF5 in the weakly coordinating solvents dichloromethane, 1,2-dichloroethane, and 1,1,2-trichlorotrifluoroethane produces solutions of M(solv)x+B(OTeF5)4−. When the solvent was 1,2-dichloroethane, the crystalline compound Tl(1,2-C2H4Cl2)B(OTeF5)4 was isolated and studied by X-ray crystallography: triclinic, space group [Formula: see text], a = 9.221 (4), b = 11.396(5), c = 12.538 (4) Å, α = 110.75 (3)°, β = 101.72(3)°, γ = 99.74 (3)°, Z = 2, T = −116 °C. The Tl(1,2-C2H4Cl2)+ cation contains a five-membered chelate ring with Tl—Cl distances of 3.138 (4) and 3.179 (3) Å. The metal ion is weakly bonded to four B(OTeF5)4− counterions, with nine Tl—F interactions that range from 2.950 (5) to 3.981 (8) Å. When the solvent is dichloromethane or 1,1,2-trichlorotrifluoroethane, only the unsolvated solid salt TlB(OTeF5)4 can be isolated by crystallization. This salt is thermally unstable, slowly forming TlOTeF5 and volatile B(OTeF5)3. Keywords: noncoordinating anion, noncoordinating solvent, metal ion solvation.


2010 ◽  
Vol 19 (12) ◽  
pp. 2430-2439 ◽  
Author(s):  
Louise J. Gourlay ◽  
Silvia Sommaruga ◽  
Marco Nardini ◽  
Paola Sperandeo ◽  
Gianni Dehò ◽  
...  

2016 ◽  
Vol 72 (11) ◽  
pp. 777-785
Author(s):  
Elena A. Mikhalyova ◽  
Swiatoslaw Trofimenko ◽  
Matthias Zeller ◽  
Anthony W. Addison ◽  
Vitaly V. Pavlishchuk

Polynuclear complexes and coordination polymers of 3dmetals have attracted significant interest evoked by a number of their unique properties. One of the most common approaches to the directed synthesis of coordination polymers is the linking of pre-prepared discrete coordination units by polydentate ligands. The formation of polynuclear complexes is usually a spontaneous process and precise prediction of the products of such reactions is virtually impossible in most cases. Tris(pyrazolyl)borates (Tp) act as tripodal `capping' ligands which form stable complexes with 3dmetal ions. In such 1:1 compounds, three metal-ion coordination sites are occupied by N atoms from a Tp anion. This limits the number of remaining coordination sites, and thus the number of additional ligands which may coordinate, and opens an attractive approach for the directed design of desirable structures by exploiting ligands with appropriate composition and topology. In the present study, Tp anions with neopentyl [TpNp, tris(3-neopentylpyrazolyl)borate] and cyclohexyl [TpCy, tris(3-cyclohexylpyrazolyl)borate] substituents were used as `capping' ligands and the dianion of tetraacetylethane (3,4-diacetylhexa-2,4-diene-2,5-diolate, tae2−) was employed as a bridge. The dinuclear complexes (μ-3,4-diacetylhexa-2,4-diene-2,5-diolato-κ4O2,O3:O4,O5)bis{[tris(3-cyclohexyl-1H-pyrazol-1-yl-κN2)borato]cobalt(II)} acetonitrile disolvate, [Co2(C27H40BN6)2(C10H12O4)]·2CH3CN, (I)·2CH3CN, and (μ-3,4-diacetylhexa-2,4-diene-2,5-diolato-κ4O2,O3:O4,O5)bis{[tris(3-neopentyl-1H-pyrazol-1-yl-κN2)borato]nickel(II)}, [Ni2(C24H40BN6)2(C10H12O4)], (II), were synthesized by the reaction of the mononuclear complexes TpCyCoCl or TpNpNiCl with H2tae (3,4-diacetylhexane-2,5-dione or tetraacetylethane) in the presence of NEt3as base. Compounds (I) and (II) were characterized by mass spectrometry, elemental analysis, and X-ray crystallography. They possess similar molecular structures, X-ray diffraction revealing them to be dinuclear in nature and composed of discrete Tp–Munits in which two metal ions are linked by a tae2−dianion. Each metal ion possesses a five-coordinate square-pyramidal environment. The interplanar angles between the acetylacetonate fragments are significantly smaller than the near-90° values commonly observed.


2017 ◽  
Vol 114 (29) ◽  
pp. 7617-7622 ◽  
Author(s):  
Truc V. Pham ◽  
Andrew S. Murkin ◽  
Margaret M. Moynihan ◽  
Lawrence Harris ◽  
Peter C. Tyler ◽  
...  

Isocitrate lyase (ICL, types 1 and 2) is the first enzyme of the glyoxylate shunt, an essential pathway forMycobacterium tuberculosis(Mtb) during the persistent phase of human TB infection. Here, we report 2-vinyl-d-isocitrate (2-VIC) as a mechanism-based inactivator ofMtbICL1 and ICL2. The enzyme-catalyzed retro-aldol cleavage of 2-VIC unmasks a Michael substrate, 2-vinylglyoxylate, which then forms a slowly reversible, covalent adduct with the thiolate form of active-site Cys191. 2-VIC displayed kinetic properties consistent with covalent, mechanism-based inactivation of ICL1 and ICL2 with high efficiency (partition ratio, <1). Analysis of a complex of ICL1:2-VIC by electrospray ionization mass spectrometry and X-ray crystallography confirmed the formation of the predicted covalentS-homopyruvoyl adduct of the active-site Cys191.


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