2. Background
ORF1a ORF1b S ORF3 E M ORF6 ORF7 ORF8 N
ORF
10
5’ 3’
o A unique accessory protein of SARS-
CoV family
o Origin of SARS-CoV-2 ORF8 protein
o Diverse roles in Coronaviruses
pathobiology
o Acting as a type1 interferon signaling
pathway inhibition
o Its believed that ORF8 functioning as a
immune modulator, ER protein quality
control and viral trafficking
3. Objective
The main objective of the study is to reveal the conformational
behavior of the native and hyper-variable mutant of SARS-CoV-2
ORF8 protein through long Molecular dynamics simulation
Also identifies the major crucial residues responsible for the
formation of ORF8 homodimer interface
4. Work Flow
SARS-CoV-2 0RF8 Protein
ORF8 Protein Sequences
from UniportKb
Literature
review
Analysis of GISAID Database
for hyper-variable residue
Homology modeling of
native and mutants
Structure Visualization
by Chimera X
Refinement by
YASARA
Model quality
assessment
Molecular dynamics
simulation on native and
mutants
Analysis of t-test on RMSD,
RG, SASA and RMSF
Principle component analysis
Per-residue wise Secondary
structure analysis
MM/GBSA Calculation
Native and
mutants dimer
interface and
interacting
residues analysis
by PDB sum
