Characterization of active-site mutants of Schizosaccharomyces pombe phosphoglycerate mutase
MOLECULAR EVOLUTION-DIRECTED APPROACH FOR DESIGNING OF -METHYLASPARTATE MUTASE FROM THE SEQUENCES OF...
Transcript of MOLECULAR EVOLUTION-DIRECTED APPROACH FOR DESIGNING OF -METHYLASPARTATE MUTASE FROM THE SEQUENCES OF...
International Journal of Chemical Modeling ISSN 1941-3955
Volume 3, Number 3 © 2011 Nova Science Publishers, Inc.
MOLECULAR EVOLUTION-DIRECTED APPROACH
FOR DESIGNING OF -METHYLASPARTATE MUTASE
FROM THE SEQUENCES OF HALOARCHAEA
P. Chellapandi1,*
and J. Balachandramohan2
1Department of Bioinformatics, Centre for Excellence in School of Life Sciences,
Bharathidasan University, Tiruchirappalli-620024, Tamil Nadu, India 2Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA
University, Thanjavur-613402, Tamil Nadu, India
Abstract
Methylaspartate mutase is one of the cobalt containing enzymes, which is mainly involved in
vitamin B12 biosynthesis and also in C5 dibasic acid metabolism of both prokaryotes and
eukaryotes. It is widely distributed in archaea, particularly haloarchaean Haloarcula
marismortui. Thus, the present work was aimed to use conserved regions of this enzyme
sequence at substrate- and metal-binding sites, and active cleft for designing enzyme
constructs so as to understand the possible rearrangement reactions. The sequences of -
methylaspartate mutase were searched from haloarchaean and then opted regions were chosen
to model 3D-structure by ModWeb server. As it was in the native enzyme sequence,
conserved domain of the same enzyme was simply modeled to bring new substrate specificity
and catalytic rearrangement reactions. The top-five energy conformer of models were selected
and allowed to interact with different substrates by using molecular dynamics simulation and
molecular docking methods, respectively. From the results obtained from this study, we
proposed that this enzyme construct has more stable at high salt concentration, and has a
strong binding affinity with theo-3-hydroxy-L-aspartate, and has also preferably interacted
with other substrates. Since, this approach can significantly imply more reliability of
designing -methylaspartate mutase construct. Perhaps, the designed enzyme would catalyze
the rearrangement of glutamate radical to methylaspartate radical in biotransformation
reactions.
Keywords: Molecular docking; Molecular dynamics; β-Methylaspartate mutase;
Haloarchaea; Molecular evolution; Enzyme design.
* E-mail address: [email protected]. Phone: +91-431-2407071, Fax: +91-431-2407045 (Corresponding
author)
P. Chellapandi and J. Balachandramohan 298
1. Introduction
Cobalt acts as an essential metal ion found associated with a number of enzymes in both
prokaryotes and eukaryotes [1-3]. It is also found in isobacterioclorins and porphyrins
isolated from sulfate reducing bacteria [4]. Methionine aminopeptidase, prolidase, nitrile
hydratase, glucose isomerase, methylmalonyl-CoA carboxytransferase, aldehyde
decarbonylase, lysine 2, 3 aminomutase, -methylaspartate mutase, and bromoperoxidase are
some examples of cobalt-containing enzymes [5]. Among these enzymes, -methylaspartate
mutase (EC 5.4.99.1) has a potential importance in industrial application include vitamin B12
biosynthesis [1] and some chemical rearrangement reactions in biotransformation [5]. It is
also participated in C5-branched dibasic acid metabolism of organism [6]. It belongs to the
family of isomerases, specifically those intramolecular transferases transferring other groups.
The systematic name of this enzyme class is L-threo-3-methylaspartate carboxy-
aminomethylmutase. Other names in common use include glutamate mutase, glutamic
mutase, glutamic isomerase, glutamic acid mutase, glutamic acid isomerase, methylaspartic
acid mutase, -methylaspartate-glutamate mutase, and glutamate isomerase. The first step in
glutamate breakdown is a conversion to β-methylaspartate by glutamate mutase (isomerase),
and the second step is the deamination of β-methylaspartate to mesaconate by β-
methylaspartase. The substrates and products of the reversible mutase reaction are identified
as L-glutamate and L-threo-β-methylaspartate, respectively [1, 6]. A rearrangement reaction
is initiated with extracting hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl
radical, which is generated by the homolytic cleavage of the organometallic bond of the
cofactor B12 [7, 8]. Several glutamate derivatives and β-methylaspartate could not serve as
substrates [6].
Many organisms have been reported to produce β-methylaspartate mutase. However, only
few of haloarchaean have to be investigated for its enzyme activity, one of which is
Haloarcula marismortui. This is a halophilic red archaeon (from the Halobacteriaceae family)
found in Dead Sea (a high saline and low oxygen solubility) and in high light intensity
environment. Like other halophilic archaebacteria, H. marismortui thrives in extreme
environment due to several adaptations in protein structure, metabolic strategies and
physiologic responses [9, 10]. Therefore, much more attempts have been focused on the
biochemical function of β-methylaspartate mutase subunit S of this organism and its
appropriate application in biotransformation reactions [6].
The evolutionary conservation in sequence as well as structure would make contribution
in enzyme catalysis. Such conserved amino acid residues are accounted to consider of
designing enzymes on which metalloenzymes have been the main concern due to extensive
role in biocatalytic activity and enzyme stability. Thus, the present work was focused on how
evolutionary conservation of β-methylaspartate mutase subunit S sequences of haloarchaean
at metal- and substrate-binding sites has to be contributed for designing enzyme constructs
with broad-substrate specificities. This study has also focused the following tasks; i) to search
occurrence of this enzyme within archaea, ii) to identify conserved domain architecture
enabling to catalyze metal-dependent biochemical reaction, iii) to develop protein 3D-
structure models wherein catalytic domain, substrate- and metal-binding sites are embossed,
iv) to find out the lowest energy conformers of enzyme constructs, and v) to calculate binding
energies of enzyme-substrate complexes that are formed.
Molecular Evolution-Directed Approach… 299
2. Materials and Methods
2.1. Evolutionary Conservation Analysis
Complete sequences of archaeal β-methylaspartate mutase subunit S were retrieved from
GenPept of NCBI. Conserved domains architecture of these sequences were searched from
NCBI-CDD (Conserved Domain Database) [11] by using conserved domain (CD) search tool
[12] with expected value threshold 10 and a low complexity filter. Metal- and substrate-
binding sites of these sequences were compared with availed PDB structures. The parameter
was set as 10 expected threshold, 3 word size, 11 gap existence cost, 1 gap extension cost,
Blossum 62 scoring matrix, conditional compositional score alignment, and automatically
adjust the parameter for short input sequences. The query sequences were compared to a
position-specific score matrix prepared from the underlying conserved domain alignment.
The selected sequences were clustered together with complete deletion of gaps and correction
in multiple substitutions by ClustalX 2.0 software [13]. All aligned sequences were iterated at
each alignment step, and manually inspected to delete the low scoring sequences. Neighbor
joining (NJ) algorithm was used to search homogeneous patterns among all lineages, and then
an unrooted phylogenetic tree was built by using MEGA 4.0 software [14] with 1000
bootstraps values [15].
2.2. Molecular Modeling
PSI-BLAST tool [16] with a default parameter was carried out to obtain a suitable PDB
template (homolog) for 3D-structure modeling from query sequences. ModWeb is an automatic
comparative protein modeling server that was used to build 3D-structures from these sequences
using comparative modeling by satisfaction of spatial restraints as implemented in Modeller [17,
18]. The resulting models were evaluated using several model assessment schemes and the best
scoring models selected. ProFunc server was used to predict the corresponding function and
active sites of each model [19]. Every model was compared with crystallographic protein
structures whose catalytic domains are similar to metal- and substrate-binding sites. Atomic
coordinates of entire structures which are not covering the position of metal- and substrate-
binding, and also active site residues have been removed.
2.3. Molecular Dynamics Simulation
Structural conformers of these models were generated by standard dynamic simulation
cascade module in Discovery Studio software using CHARMM force field and steepest
descent as well as adopted basis Newton-Raphson algorithms. The
terms conformation and conformer are used to represent different geometrical configurations
of atoms in a molecule. In Discovery Studio, these terms can also apply to subsets of atoms of
a molecule, such as a single amino acid residue. Conformers are typically created for
molecules that have a small number of alternate locations for a small subset of the atoms.
Conformers are represented by conformer atoms and conformer bonds, which can be
manipulated similarly to, and independently of, other atoms and bonds. There are no
P. Chellapandi and J. Balachandramohan 300
constraints on the number of conformers, although there are usually between 2 and 4 for the
residues where conformers are defined. Distance constraint of the model was between N-
terminal to C-terminal and dihedral restraint was started from C to Cα (Ф) of first amino acid
residue and Cα to N (ψ) of second amino acid residue until the last amino acid residue in a
molecular dynamic ensemble. Molecular dynamic simulation was executed for 2.24 hrs, and
after that 30 conforms of the same model were generated based on the relationship of
conformation index and total energy. The lowest energy conformer of model was selected for
further docking studies with respective substrates. Conformers belonging to the same model
were grouped under a conformer model, which was listed under the Conformer Model tab in
Discovery Studio. Generalized Born with a simple Switching implicit solvent model was used
with spherical cut-off (electrostatic), 80 implicit dielectric constant, 1 dielectric constant, 0
salt concentration and non-polar surface area for conformational analysis.
2.4. Molecular Docking
AutoDock software 4.0 was used for finding inhibition constants, free energy of binding,
intermolecular and internal energies of selected low energy conformers with substrates by using
Genetic algorithm [20] and AMBER force field parameters set. SIMCOM software of KEGG
(http://www.genome.jp/tools/simcomp) was used to retrieve related strutures for substrate in
MOL2 files and then converted to PDB format. In docking process, enzyme construct was fixed
as regid whereas substrate was set as flexible. Active site amino acid residues of enzyme was
selected in an enegy grid and prefered to dock with a flexible susbstrate. To find out the lowest
binding energy, all ligands (substrates) were allowed to interat with correponding enzyme. The
molecular mechanics-based and empirical terms were multiplied by coefficients that are
determined by linear regression analysis of complexes with known 3D-structures and known
binding free energies. Minimization of docked structures was performed with smart energy
minimization algorithm to refine the orientation of the substrate in the receptor site. After
docking, this construct was solvated with explicit periodic boundary solvation model. Solvation
parameter was set as 20 radius of sphere, 7.0 minimum distance from boundary, orthorhombic
cell shape, false counter ion, 0.145 salt concentration, 3145150 random speed, sodium type
cation and chloride type anion. Accurate treatment of solvation effects, at the level of individual
water molecules, is essential for enzymatic activity and formation of enzyme-substrate complex
in water. Several strategies exist for explicit water conformational sampling, but none of those
proposed thus far are suitable for the simultaneous sequence/conformational sampling necessary
for modeling of evolutionary dynamics. A semi-explicit water sampling algorithm implemented
in AutoDock that combines continuum and explicit solvation (an explicit/implicit water
interface), creating and annihilating waters as needed based on a grand canonical ensemble
Monte Carlo simulation method. AutoDock scoring system, binding energy and RMSD (root
mean square deviation) were used to check the quality of docking models.
3. Results
While searching the sequences of -methylaspartate mutase small subunit S from
archaea, many sequences were deposited only for haloarchaea (Haloarcula marismortui
Molecular Evolution-Directed Approach… 301
ATCC 43049, H. salinarum R1, H. mukohataei DSM 12286 and Natrialba magadii ATCC
43099). No crystallographic data availed in PDB for structural information of this enzyme.
PSI-BLAST search results showed that overall structural identity of this enzyme was ranged
from 45 to 51% in which a sequence with accession Q5V467 (construct) was more opted for
designing enzyme. It has the shortest amino acid length and embossed metal-binding as well
as catalytic domains. Other protein models were neglected due to low modeling scores and
diverged positions of the active residues, and substrate-binding sites in conserved domains
(Table 1 and 2). The amino acid position of 8-139 was modeled with a template 1ccwA and
48% identity and 1.62 MPQS obtained. Amino acid residues Ala34, Gly35 and Phe36 were
predicted in the metal binding position (15-130) as nest sites of this enzyme, and showed
conservation score of 2.626. At the amino acid position 15-130, metal binding sites of
construct was found as B12 glm_B12_BD (B12 binding domain of glutamate mutase) of B12
binding like superfamily with e-value of 3e-46 that can contribute to harbor its catalytic
function on methylaspartate.
Table 1. Homology modeling for predicting 3D-structure of -methylaspartate mutase
Accession AA Template Identity Position MPQS Z-Dope
Q9HN21 149 1be1A 45 7-138 1.35 0.81
YP_001690048 149 1be1A 45 7-138 1.35 0.81
NP_280920 149 1be1A 45 7-138 1.35 0.81
Q5V467 151 1ccwA 48 8-139 1.62 -1.71
Q5V3F0 148 1be1A 51 2-132 1.46 0.22
YP_135658 148 1be1A 51 2-132 1.46 0.22
All of the protein models had modeling score of 1.00.
Table 2. Data mining for searching metal binding and active site similarity regions
of -methylaspartate mutase models (PSSM-ID: 30210)
Accession Template Metal
binding site Active site Score
Q9HN21 1be1A 15-126 Val20, Gly21, Ile22, Thr23 3.724
YP_001690048 1be1A 15-126 Val20, Gly21, Ile22, Thr23 3.724
NP_280920 1be1A 15-126 Val20, Gly21, Ile22, Thr23 3.724
Q5V467 1ccwA 15-130 Ala34, Gly35, Phe36 2.626
Q5V3F0 1be1A 10-125 Val16, Gly17, Ile18, Thr19 4.713
YP_135658 1be1A 10-125 Val16, Gly17, Ile18, Thr19 4.713
Phylogenetic analysis of this study showed that β-methylaspartate mutase subunit S
sequences of haloarchaea were formed a separate clade that revealed its evolutionary
resemblance within closely related species (Fig. 1). Later on, it was formed a cluster with
halophilic bacteria such as Oceanospirillum sp. MED92 and Salinispora arwnicola CNS-205.
The sequences of β-methylaspartate mutase subunit S of proteobacteria was also showed
phylogenetic correspondence to haloarchaean.
P. Chellapandi and J. Balachandramohan 302
Figure 1. NJ Phylogenetic tree of -methylaspartate mutase sequences obtained from archaea.
Figure 2. Total energy versus conformational index relationship of searching the lowest energy
conformers of -methylaspartate mutase construct using energy minimization and dynamic simulation.
As shown in Fig. 2, the total energy and conformational index liaison of searching the
lowest energy conformers of -methylaspartate mutase construct during energy minimization
and dynamic simulation. Based on the conformation energies, the top-five lowest energy
conformers have been selected. Molecular dynamics studies as shown in Table 3 pointed out
that the total energy of top-five conformers was not changed significantly. vander Waals
energies of the conformers were ranged from -681.94 to 705.81 kcal/mol where as
electrostatic energies were ranged from -3125.96 to 3215.91 kcal/mol. It indicated that the
structure of this enzyme construct is stabilized better by electrostatic interaction than vander
Halobacterium salinarum
Halobacterium salinarum R1
Halobacterium sp. NRC-1
Halobacterium salinarum R1
Halomicrobium mukohataei DSM 12286
Halomicrobium mukohataei DSM 12286
Haloarcula marismortui (Model )
Natrialba magadii ATCC 43099
Haloarcula marismortui
Haloarcula marismortui ATCC 43049
Oceanospirillum sp. MED92
Salinispora arenicola CNS-205
Pelotomaculum thermopropionicum SI
Dictyoglomus turgidum DSM 6724
Desulfotomaculum reducens MI-1
Carboxydothermus hydrogenoformans Z-2901
Alkaliphilus metalliredigens QYMF
Escherichia coli O157:H7 str. EC4024
Molecular Evolution-Directed Approach… 303
Waals interaction. The best conformational energy of construct was -3778 kcal/mol (252
kcal.mol torsion energy) at 309 K.
Table 3. Molecular dynamic simulation for searching the lowest energy conformers
of -methylaspartate mutase constructs.
Conformer Total
energy
Vander
Waals energy
Electrostatic
energy
Torsion
energy
Temperature
K
1 -3778.66 -685.90 -3244.20 252.19 309.35
2 -3777.66 -681.21 -3125.96 261.29 304.65
3 -3777.14 -697.24 -3188.22 259.58 304.39
4 -3777.11 -705.81 -3215.35 253.65 301.70
5 -3777.08 -681.94 -3215.91 250.13 301.16
All of the molecular energies are expressed as kcal/mole.
Figure 3. Representative docking model of threo-3-hydroxy-L-aspartate into -methylaspartate mutase
construct (Q5V467) is represented interaction site view of enzyme-substrate complex. After docking,
this model was solvated with explicit periodic boundary solvation model. The yellow dot lines denote
the hydrogen bonds. All the amino acid residues which involved in molecular interaction are shown in
line drawing and colored by residue types in which hydrogen is colored white, carbon green, oxygen
red, nitrogen blue, and sulfur orange. Ligands are shown in stick in which carbon is colored tints,
hydrogen gray, nitrogen blue, and sulfur orange. All the interaction distances are represented as RMSD
and expressed as Angstrom (Å). The binding energy as well as intermolecular forces acting on this
docking model is represented in Table 4.
P. Chellapandi and J. Balachandramohan 304
Table 4. Molecular docking for predicting binding energy of -methylaspartate mutase
constructs and substrates interactions
Substrates
Binding
energy
(kcal/mol)
Inhibition
constant
(Ki mM)
Intermolecular
energy
(kcal/mol)
Internal
energy
(kcal/mol)
L-threo-3-Methylaspartate -4.16 0.89 -3.65 -3.13
L-threo-3-Methylmalate -2.65 11.46 -3.51 -3.39
threo-3-Hydroxy-L-aspartate -5.47 0.10 -4.48 -3.79
4-Methyl-L-glutamate -5.02 0.21 -5.01 -4.47
L-Tartaric acid -2.26 22.02 -3.07 -2.64
meso-2,3-Dimercaptosuccinic
acid
-2.07 30.25 -3.35 -3.12
Figure 4. 3D-structural representation (Rasmol view) of designed -methylaspartate mutase construct.
In molecular docking studies, the substrates include L-threo-3-methylaspartate, L-threo-
3-methylmalate, threo-3-hydroxy-L-aspartate, 4-methyl-L-glutamate, L-tartaric acid and
meso-2, 3-dimercaptosuccinic acid have docked into enzyme construct (Fig. 3). Upon
considering strong molecular interactions, enzyme construct-threo-3-hydroxy-L-aspartate
complex was selected as the best docking model of this study. Atom N1 of threo-3-hydroxy-
L-aspartate has made H-bonding to OH group of Tyr92 residue in enzyme construct with
interaction distance of 2.66 Å whereas atoms of OXT (2.83 Å) and O1 (2.92Å) formed H-
bands with the side chain residue Arg118. As shown in Fig. 4, 71 H-bands donors, 4 helixes,
10 turns and 2 strands were found in this construct. Catalytically, it was more suited for threo-
3-hydroxy-L-aspartate rather than the native substrate L- threo-3-methylaspartate due a strong
binding affinity was predicted for first one.
Molecular Evolution-Directed Approach… 305
4. Discussion
Most of the members of B12 binding-like superfamily are attracted different cobalamide
derivates [21]. This clan comprises of several enzymes, such as glutamate mutase, methionine
synthase and methylmalonyl-CoA mutase enzymes [5]. Cobalamin has undergone a
conformational change on binding the protein. Dimethylbenzimidazole group can coordinate
the cobalt in the free cofactor, moved away from the corrin, which is replaced by a histidine
contributed by protein. The sequence motif Asp-X-His-X-X-Gly is contained this histidine
ligand that is conserved in many cobalamin-binding proteins. Not all members of this family
have such conserved binding motif [3]. Hence, the metal- and substrate-binding sites and
catalytic domain of this enzyme construct showed more evolutionary conservation, and
resemblance with closely related species. It suggests the occurrence of possible molecular
interactions with different substrates at cobalamin-binding regions by this construct.
Comparing the large subunits of glutamate mutases and related enzymes have showed the
highest degree of similarity for GlmB and NikV proteins of Streptomyces tendae [2].
Similarly, haloarchaean‘s enzyme sequences have showed phylogenetic correspondence to
halophilic bacteria and proteobacteria, reflecting that the functional divergence of this enzyme
may be resulted among prokaryotes. It suggested that its enzyme function can be evolved
from proteobacteria, and halotolerant capability of it should be acquired as such through
subsequent evolutionary process within haloarchaea. It is agreed earlier work done on
halotolerant malate dehydrogenase and such ability, stability and activity developed as the
results of growing H. marismortui in the Dead Sea [22]. Crystallographic studies proved that
the surface of halophilic proteins is enriched by acidic amino acids, which maintains stability
of them in high salt concentration [3, 9]. Anion-binding sites in halophilic enzymes are also
stabilized in the environment containing salt [22]. It is clearly known that -methylaspartate
mutase is one of the candidates in malate dehydrogenase family. Since the sequence used in
this study was obtained from H. marismortui and the surface of this enzyme has enriched
with acidic amino acids, and anion-binding sites, this enzyme construct would be stable even
at high salt concentration. Phylogenetic analysis of this study also supported that conserved
regions of this enzyme was strongly correlated its relationship with haloarchaean family.
In glutamate mutase catalyzed reaction, hydrogen on carbon-4 of glutamate is
interchanged with the glycyl group on carbon-3 to give methylaspartate. Glutamate mutase
catalyzes an unusual rearrangement reaction that involves radical intermediates [21]. The
adenosyl radical generated by B12 can be used to remove the migrating hydrogen from the
substrate. It is a step common to all B12 isomerases in many organisms. The substrate radical
can be rearranged to form a product radical, in this case methylaspartyl radical. Then, the
hydrogen is replaced from the coenzyme to give methylaspartate and regenerate the adenosyl
radical, which may be 'stored' by reforming the cobalt-carbon bond. In essence, the
introduction of the unpaired electron onto the substrate serves to activate it towards chemical
reactions that would not otherwise be feasible [7, 8, 21]. The results obtained from molecular
docking studies proposed that the rearrangement of glutamyl radical to methylaspartyl radical
can be occurred by fragmentation of the glutamyl radical. This rearrangement reaction gives
acrylate and a glycyl radical as intermediates, followed by recombination of the glycyl radical
with the other end of the acrylate double bond to yield the methylaspartyl radical.
P. Chellapandi and J. Balachandramohan 306
Chemical models suggests the formation of a substituted cyclopropyl methylene radical
as an intermediate in the rearrangement of 2-methyleneglutarate to (R)-3-methylitaconate
catalyzed by the related 2-methyleneglutarate mutase. Such a mechanism is unlikely in the
glutamate mutase reaction due to the lack of a double bond at the migrating carbon. Indeed,
chemical modeling showed that glutamate derivatives only rearranged if the amino acid was
converted to a ketimine suggesting the participation of an electrophilic center in the reaction
[1]. The side chains of Val20, Gly21, IIe22 and Thr23 residues in this construct are the
primary covalent attachment sites to a substrate L-threo-3-methylaspartate, but the binding
energy and other molecular energies of enzyme-substrate complex are not significantly stable.
However, a molecular interaction and binding affinity attributed by the side chains of Tyr92
or Arg118 residues in this construct with threo-3-hydroxy-L-aspartate are stable.
Accordingly, (a strong enzyme-substrate complex and a low energy conformation of model),
the amino acids residues as it is in native form can be served as catalytic regions, and thereby
it would catalyze to convert threo-3-hydroxy-L-aspartate into glutamate.
Conclusion
The enzymes manganese superoxide dismutase by molecular mechanics calculations
employing the CAChe system [23] and rational design using DEZYMER algorithm [24],
nuclease and protease by modification of protein scaffold [25], deoxyribose-phosphate
aldolase by the recapitulation of active sites of native enzymes [26], isochorismate pyruvate
lyase by quantum mechanics/molecular mechanics [27], and chorismate mutase by computing
empirical valence bonds [28] have already been designed by computational approaches.
However, those approaches have been employed complex mathematical derivations and
altered protein scaffold or amino acids as compared to the evolution-directed approach.
Unfortunately the resulting enzyme constructs have been significantly less effective than the
corresponding natural enzymes [29] and the reasons for these limited successes are not
completely clear [28]. Herein, we have not done any alternation in native amino acids
position or replacing residues. It is directly based on evolutionary conservation of substrate-
and metal-binding domains of the enzyme. This hypothesis is that if any enzyme has similar
or identical conserved domain in its catalytic region, it can bring similar catalytic activity and
broad substrate specificity. Generally, most of the haloarchaean enzymes are highly
conserved within this group and are unique as compared to bacterial enzymes. The enzyme
sequences of this study are obtained from Haloarchaea. Consequently, this approach is
strongly supported for designing enzyme construct with more biological significance that may
be accorded with experimental work. In this perspective, few experimental success have been
made for proteinase K invariant by machine learning algorithms [30], -glycosidases by
amino acid replacements [31], and L-aminoacylase by alternation of metal ions [32] in the
recent years. Overall, this enzyme construct has a low probability to fold in artificial
environment for catalytic action so that it is suggested for appropriateness of using it in
biotechnological processes and in green chemistry applications.
Molecular Evolution-Directed Approach… 307
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