scholarly journals Roles of Active-Site Aromatic Residues in Cold Adaptation of Sphingomonas glacialis Esterase EstSP1

ACS Omega ◽  
2017 ◽  
Vol 2 (12) ◽  
pp. 8760-8769 ◽  
Author(s):  
Ayesha Kashif ◽  
Lan-Huong Tran ◽  
Sei-Heon Jang ◽  
ChangWoo Lee
2013 ◽  
Vol 67 (7) ◽  
Author(s):  
Pavan GhattyVenkataKrishna ◽  
Neelima Chavali ◽  
Edward Uberbacher

AbstractThe presence of an unusually large number of aromatic residues in the active site gorge of acetylcholinesterase is a subject of great interest. Flexibility of these residues has been suspected to be a key player in controlling the ligand traversal in the gorge. This raises the question of whether the over-representation of aromatic residues in the gorge implies higher-than-normal flexibility of these residues. The current study suggests that it does not. Large changes in the hydrophobic cross-sectional area due to dihedral oscillations are probably the reason of their presence in the gorge.


2006 ◽  
Vol 54 (10) ◽  
pp. 3585-3590 ◽  
Author(s):  
Tsuei-Yun Fang ◽  
Wen-Chi Tseng ◽  
Yao-Te Chung ◽  
Ching-Hsing Pan

Biochimie ◽  
2014 ◽  
Vol 102 ◽  
pp. 29-36 ◽  
Author(s):  
Chongliang Gao ◽  
Dongming Lan ◽  
Lu Liu ◽  
Houjin Zhang ◽  
Bo Yang ◽  
...  

Biochemistry ◽  
1999 ◽  
Vol 38 (42) ◽  
pp. 13810-13819 ◽  
Author(s):  
Do-Hyung Kim ◽  
Gyu Hyun Nam ◽  
Do Soo Jang ◽  
Gildon Choi ◽  
Soyoung Joo ◽  
...  

2021 ◽  
Author(s):  
Nehad Noby ◽  
Husam Sabah Auhim ◽  
Rachel L. Johnson ◽  
Harley Worthy ◽  
Amira M. Embaby ◽  
...  

AbstractCold-active esterases hold great potential for undertaking useful biotransformations at low temperatures. Here, we determined the structure of a cold active family IV esterase (EstN7) cloned from Bacillus cohnii strain N1, which has an apparent melting temperature of 26°C. EstN7 is a dimer with a classical α/β hydrolase fold. It has an acidic surface that is thought to play a role in cold-adaption by retaining solvation under changed water solvent entropy at lower temperatures. However, dynamics do not appear to play a major role in cold adaption. Comparison of B-factors with the closest related mesophilic and thermophilic esterases suggests there is little difference in dynamics with the catalytically important N-terminal cap comprising the main dynamic element. Molecular dynamics, rigidity analysis, normal mode analysis and geometric simulations of motion confirm the flexibility of the cap region but suggest that the rest of the protein is largely rigid. Rigidity analysis indicates the distribution of hydrophobic tethers is appropriate to colder conditions, where the hydrophobic effect is weaker than in mesophilic conditions due to reduced water entropy. The conformation of the cap region is significantly different to EstN7’s closest relatives, forming a bridge-like structure with reduced helical content providing more than one access tunnel through to the active site. Thus, it is likely that increased substrate accessibility and tolerance to changes in water entropy are the main drivers of EstN7’s cold adaptation rather than changes in dynamics.


2003 ◽  
Vol 185 (14) ◽  
pp. 4038-4049 ◽  
Author(s):  
Zhen Xu ◽  
Yunqing Liu ◽  
Yunliu Yang ◽  
Weihong Jiang ◽  
Eddy Arnold ◽  
...  

ABSTRACT d-Hydantoinase (d-HYD) is an industrial enzyme that is widely used in the production of d-amino acids which are precursors for semisynthesis of antibiotics, peptides, and pesticides. This report describes the crystal structure of d-hydantoinase from Burkholderia pickettii (HYDBp) at a 2.7-Å resolution. The structure of HYDBp consists of a core (α/β)8 triose phosphate isomerase barrel fold and a β-sheet domain, and the catalytic active site consists of two metal ions and six highly conserved amino acid residues. Although HYDBp shares only moderate sequence similarity with d-HYDs from Thermus sp. (HYDTsp) and Bacillus stearothermophilus (HYDBst), whose structures have recently been solved, the overall structure and the structure of the catalytic active site are strikingly similar. Nevertheless, the amino acids that compose the substrate-binding site are less conserved and have different properties, which might dictate the substrate specificity. Structural comparison has revealed insights into the molecular basis of the differential thermostability of d-HYDs. The more thermostable HYDTsp contains more aromatic residues in the interior of the structure than HYDBp and HYDBst. Changes of large aromatic residues in HYDTsp to smaller residues in HYDBp or HYDBst decrease the hydrophobicity and create cavities inside the structure. HYDTsp has more salt bridges and hydrogen-bonding interactions and less oxidation susceptible Met and Cys residues on the protein surface than HYDBp and HYDBst. Besides, HYDTsp also contains more rigid Pro residues. These factors are likely to make major contributions to the varying thermostability of these enzymes. This information could be exploited in helping to engineer more thermostable mesophilic enzymes.


2007 ◽  
Vol 1770 (5) ◽  
pp. 753-762 ◽  
Author(s):  
Paolo Paoli ◽  
Alessandra Modesti ◽  
Francesca Magherini ◽  
Tania Gamberi ◽  
Anna Caselli ◽  
...  

2008 ◽  
Vol 95 (5) ◽  
pp. 2500-2511 ◽  
Author(s):  
Yechun Xu ◽  
Jacques-Philippe Colletier ◽  
Martin Weik ◽  
Hualiang Jiang ◽  
John Moult ◽  
...  

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