Crystal Structures of 2-Methylisocitrate Lyase in Complex with Product and with Isocitrate Inhibitor Provide Insight into Lyase Substrate Specificity, Catalysis and Evolution†,‡

Biochemistry ◽  
2005 ◽  
Vol 44 (8) ◽  
pp. 2949-2962 ◽  
Author(s):  
Sijiu Liu ◽  
Zhibing Lu ◽  
Yin Han ◽  
Eugene Melamud ◽  
Debra Dunaway-Mariano ◽  
...  
Keyword(s):  
Substrate Specificity ◽  
Crystal Structures ◽  
Insight Into

Structures of AzrA and of AzrC complexed with substrate or inhibitor: insight into substrate specificity and catalytic mechanism

2014 ◽  
Vol 70 (2) ◽  
pp. 553-564 ◽  
Author(s):  
Jian Yu ◽  
Daiki Ogata ◽  
ZuoQi Gai ◽  
Seiichi Taguchi ◽  
Isao Tanaka ◽  
...  
Keyword(s):  
Substrate Specificity ◽  
Crystal Structures ◽  
Azo Dyes ◽  
Catalytic Mechanism ◽  
Initial Step ◽  
Site Directed Mutagenesis ◽  
Flavin Mononucleotide ◽  
Catalytic Mechanisms ◽  
Hydroxy Groups ◽  
Insight Into

Azo dyes are major synthetic dyestuffs with one or more azo bonds and are widely used for various industrial purposes. The biodegradation of residual azo dyesviaazoreductase-catalyzed cleavage is very efficient as the initial step of wastewater treatment. The structures of the complexes of azoreductases with various substrates are therefore indispensable to understand their substrate specificity and catalytic mechanism. In this study, the crystal structures of AzrA and of AzrC complexed with Cibacron Blue (CB) and the azo dyes Acid Red 88 (AR88) and Orange I (OI) were determined. As an inhibitor/analogue of NAD(P)H, CB was located on top of flavin mononucleotide (FMN), suggesting a similar binding manner as NAD(P)H for direct hydride transfer to FMN. The structures of the AzrC–AR88 and AzrC–OI complexes showed two manners of binding for substrates possessing a hydroxy group at theorthoor theparaposition of the azo bond, respectively, while AR88 and OI were estimated to have a similar binding affinity to AzrC from ITC experiments. Although the two substrates were bound in different orientations, the hydroxy groups were located in similar positions, resulting in an arrangement of electrophilic C atoms binding with a proton/electron-donor distance of ∼3.5 Å to N5 of FMN. Catalytic mechanisms for different substrates are proposed based on the crystal structures and on site-directed mutagenesis analysis.

Über einige Beziehungen zwischhen Kristallstrukturen

1956 ◽  
Vol 11 (11) ◽  
pp. 920-934b
Author(s):  
Konrad Schubert
Keyword(s):  
Crystal Structure ◽  
Crystal Structures ◽  
Spatial Correlation ◽  
Chemical Elements ◽  
Electron Gas ◽  
Lattice Constants ◽  
Hexagonal Close Packed ◽  
Binary Compounds ◽  
Atomic Radii ◽  
Insight Into

In determining structures we use physical propositions in order to find a likely crystal structure. The same propositions are of value for the ordering of known structures into a natural system. The atomic radii form such a proposition. Another proposition is contained in the spatial correlation of electrons in the electron gas. The question is, whether this correlation is of influence on the crystal structure or not. To gain a first insight into this question, it is useful to know whether the crystal structures are physically compatible with a certain spatial correlation of electrons. Some qualitative rules are given to assess the physical possibility of a spatial correlation of electrons in a crystal structure. For the crystal structures of some chemical elements proposals for electron correlation are given. These proposals account for rationalities existing between some lattice constants, e. g. the axial ratios of the hexagonal close packed structures of Co and Zn. The proposals are also applicable to some binary compounds. With regard to these commensurabilities, it seems possible that the examination of the spatial correlation of electrons may lead to a better understanding of the crystal-chemical empiry.

scholarly journals Crystal structures of human ETB receptor provide mechanistic insight into receptor activation and partial activation

2018 ◽  
Vol 9 (1) ◽  
Author(s):  
Wataru Shihoya ◽  
Tamaki Izume ◽  
Asuka Inoue ◽  
Keitaro Yamashita ◽  
Francois Marie Ngako Kadji ◽  
...  
Keyword(s):  
Crystal Structures ◽  
Receptor Activation ◽  
Partial Activation ◽  
Mechanistic Insight ◽  
Etb Receptor ◽  
Insight Into

scholarly journals RNA-Seq Approach for Genetic Improvement of Meat Quality in Pig and Evolutionary Insight into the Substrate Specificity of Animal Carbonyl Reductases

PLoS ONE ◽  
2012 ◽  
Vol 7 (9) ◽  
pp. e42198 ◽  
Author(s):  
Won Yong Jung ◽  
Seul Gi Kwon ◽  
Minky Son ◽  
Eun Seok Cho ◽  
Yuno Lee ◽  
...  
Keyword(s):  
Substrate Specificity ◽  
Meat Quality ◽  
Genetic Improvement ◽  
Rna Seq ◽  
Insight Into

Structural insight into OprD substrate specificity

2007 ◽  
Vol 14 (11) ◽  
pp. 1108-1109 ◽  
Author(s):  
Shyamasri Biswas ◽  
Mohammad M Mohammad ◽  
Dimki R Patel ◽  
Liviu Movileanu ◽  
Bert van den Berg
Keyword(s):  
Substrate Specificity ◽  
Structural Insight ◽  
Insight Into
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