scholarly journals Correction: Dynamic properties of dipeptidyl peptidase III from Bacteroides thetaiotaomicron and the structural basis for its substrate specificity – a computational study

2017 ◽  
Vol 13 (12) ◽  
pp. 2729-2730
Author(s):  
M. Tomin ◽  
S. Tomić
Keyword(s):  
Substrate Specificity ◽  
Computational Study ◽  
Dynamic Properties ◽  
Dipeptidyl Peptidase ◽  
Structural Basis ◽  
Bacteroides Thetaiotaomicron

Correction for ‘Dynamic properties of dipeptidyl peptidase III from Bacteroides thetaiotaomicron and the structural basis for its substrate specificity – a computational study’ by M. Tomin et al., Mol. BioSyst., 2017, 13, 2407–2417.

scholarly journals Dynamic properties of dipeptidyl peptidase III from Bacteroides thetaiotaomicron and the structural basis for its substrate specificity – a computational study

2017 ◽  
Vol 13 (11) ◽  
pp. 2407-2417 ◽  
Author(s):  
M. Tomin ◽  
S. Tomić
Keyword(s):  
Enzyme Activity ◽  
Substrate Specificity ◽  
Computational Study ◽  
Dynamic Properties ◽  
Dipeptidyl Peptidase ◽  
Structural Basis ◽  
Wild Type ◽  
Bacteroides Thetaiotaomicron ◽  
Human Gut

Dynamics and enzyme activity of dipeptidyl peptidase III, wild type and mutants, from the human gut symbiont Bacteroides thetaiotaomicron.

Structural insights into the substrate specificity of a glycoside hydrolase family 5 lichenase from Caldicellulosiruptor sp. F32

2017 ◽  
Vol 474 (20) ◽  
pp. 3373-3389 ◽  
Author(s):  
Dong-Dong Meng ◽  
Xi Liu ◽  
Sheng Dong ◽  
Ye-Fei Wang ◽  
Xiao-Qing Ma ◽  
...  
Keyword(s):  
Crystal Structure ◽  
Substrate Specificity ◽  
Glycoside Hydrolase ◽  
Complex Structure ◽  
Dynamics Simulation ◽  
Structural Basis ◽  
Glycoside Hydrolase Family ◽  
Substrate Selectivity ◽  
Glucose Residue ◽  
Structural Insights

Glycoside hydrolase (GH) family 5 is one of the largest GH families with various GH activities including lichenase, but the structural basis of the GH5 lichenase activity is still unknown. A novel thermostable lichenase F32EG5 belonging to GH5 was identified from an extremely thermophilic bacterium Caldicellulosiruptor sp. F32. F32EG5 is a bi-functional cellulose and a lichenan-degrading enzyme, and exhibited a high activity on β-1,3-1,4-glucan but side activity on cellulose. Thin-layer chromatography and NMR analyses indicated that F32EG5 cleaved the β-1,4 linkage or the β-1,3 linkage while a 4-O-substitued glucose residue linked to a glucose residue through a β-1,3 linkage, which is completely different from extensively studied GH16 lichenase that catalyses strict endo-hydrolysis of the β-1,4-glycosidic linkage adjacent to a 3-O-substitued glucose residue in the mixed-linked β-glucans. The crystal structure of F32EG5 was determined to 2.8 Å resolution, and the crystal structure of the complex of F32EG5 E193Q mutant and cellotetraose was determined to 1.7 Å resolution, which revealed that the exit subsites of substrate-binding sites contribute to both thermostability and substrate specificity of F32EG5. The sugar chain showed a sharp bend in the complex structure, suggesting that a substrate cleft fitting to the bent sugar chains in lichenan is a common feature of GH5 lichenases. The mechanism of thermostability and substrate selectivity of F32EG5 was further demonstrated by molecular dynamics simulation and site-directed mutagenesis. These results provide biochemical and structural insights into thermostability and substrate selectivity of GH5 lichenases, which have potential in industrial processes.

scholarly journals Crystal structure of dipeptidyl peptidase III from the human gut symbiont Bacteroides thetaiotaomicron

PLoS ONE ◽  
2017 ◽  
Vol 12 (11) ◽  
pp. e0187295 ◽  
Author(s):  
Igor Sabljić ◽  
Nevenka Meštrović ◽  
Bojana Vukelić ◽  
Peter Macheroux ◽  
Karl Gruber ◽  
...  
Keyword(s):  
Crystal Structure ◽  
Dipeptidyl Peptidase ◽  
Bacteroides Thetaiotaomicron ◽  
Human Gut

scholarly journals Structural Basis for Substrate Specificity ofEscherichia coliPurine Nucleoside Phosphorylase

2003 ◽  
Vol 278 (47) ◽  
pp. 47110-47118 ◽  
Author(s):  
Eric M. Bennett ◽  
Chenglong Li ◽  
Paula W. Allan ◽  
William B. Parker ◽  
Steven E. Ealick
Keyword(s):  
Substrate Specificity ◽  
Structural Basis ◽  
Nucleoside Phosphorylase

scholarly journals Structural basis for catalysis and substrate specificity of human ACAT1

Nature ◽  
2020 ◽  
Vol 581 (7808) ◽  
pp. 333-338 ◽  
Author(s):  
Hongwu Qian ◽  
Xin Zhao ◽  
Renhong Yan ◽  
Xia Yao ◽  
Shuai Gao ◽  
...  
Keyword(s):  
Substrate Specificity ◽  
Structural Basis

Structural Basis of Substrate Specificity of Plant 12-Oxophytodienoate Reductases

2009 ◽  
Vol 392 (5) ◽  
pp. 1266-1277 ◽  
Author(s):  
Constanze Breithaupt ◽  
Robert Kurzbauer ◽  
Florian Schaller ◽  
Annick Stintzi ◽  
Andreas Schaller ◽  
...  
Keyword(s):  
Substrate Specificity ◽  
Structural Basis

Structural Basis for the Mutation-Induced Dysfunction of Human CYP2J2: A Computational Study

2013 ◽  
Vol 53 (6) ◽  
pp. 1350-1357 ◽  
Author(s):  
Shan Cong ◽  
Xiao-Tu Ma ◽  
Yi-Xue Li ◽  
Jing-Fang Wang
Keyword(s):  
Computational Study ◽  
Structural Basis
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