Comparison of structural architecture of HCV NS3 genotype 1 versus Pakistani genotype 3a.
This study described the structural characterization of Pakistani HCV NS3 GT3a in parallel with genotypes 1a and 1b NS3. We investigated the role of amino acids and their interaction patterns in different HCV genotypes by crystallographic modeling. Different softwares were used to study the interaction pattern, for example, CLCBIO sequence viewer, MODELLER, NMRCLUST, ERRAT score, and MODELLER. Sixty models were produced and clustered into groups and the best model of PK-NCVI/Pk3a NS3 was selected and studied further to check the variability with other HCV NS3 genotypes. This study will help in future to understand the structural architecture of HCV genome variability and to further define the conserved targets for antiviral agents.
IQ Institute of Infection and Immunity, P.O. Box 54000, Lahore, Punjab, Pakistan.
Kaneez
0000-0001-7509-8530
K
Fatima
King Fahd Medical Research Center, King Abdul Aziz University, P.O. Box 80216, Jeddah 21589, Saudi Arabia.
Esam
0000-0002-1736-181X
E
Azhar
King Fahd Medical Research Center, King Abdul Aziz University, P.O. Box 80216, Jeddah 21589, Saudi Arabia ; Center of Excellence in Genomic Medicine, King Abdul Aziz University, P.O. Box 80216, Jeddah 21589, Saudi Arabia.
Shilu
S
Mathew
King Fahd Medical Research Center, King Abdul Aziz University, P.O. Box 80216, Jeddah 21589, Saudi Arabia.
Ghazi
G
Damanhouri
King Fahd Medical Research Center, King Abdul Aziz University, P.O. Box 80216, Jeddah 21589, Saudi Arabia.
Ishtiaq
0000-0003-4334-0585
I
Qadri
D000595:Amino Acid Sequence; D019943:Amino Acid Substitution / Q000235:genetics; D005838:Genotype; D016174:Hepacivirus / Q000235:genetics* / Q000472:pathogenicity; D006526:Hepatitis C / Q000235:genetics* / Q000821:virology; D006801:Humans; D011487:Protein Conformation; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D017361:Viral Nonstructural Proteins / Q000737:chemistry / Q000235:genetics*; D012697:Serine Endopeptidases; D043583:Nucleoside-Triphosphatase; D053487:DEAD-box RNA Helicases; D000085242:Viral Proteases
D017361:Viral Nonstructural Proteins; C084422:NS3 protein, hepatitis C virus; D012697:Serine Endopeptidases; D043583:Nucleoside-Triphosphatase; D053487:DEAD-box RNA Helicases; D000085242:Viral Proteases