In silico study on the effects of disulfide bonds in ORF8 of SARS-CoV-2
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Abstract
The effects of the disulfide bonds in ORF8 of SARS-CoV-2 are systematically investigated on its structure and functions. The binding sites between ORF8 and HLA-A are predicted and found to be independent of the reduction of the disulfide bonds.
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SciScore for 10.1101/2021.11.29.470346: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources MD simulation: We use the software package GROMACS 5.1.130 for the MD simulations, with force field CHARMM36M31 and the modified TIP3P32 water model which is adjusted for CHARMM force field. GROMACSsuggested: (GROMACS, RRID:SCR_014565)Results from OddPub: Thank you for sharing your data.
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues …
SciScore for 10.1101/2021.11.29.470346: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources MD simulation: We use the software package GROMACS 5.1.130 for the MD simulations, with force field CHARMM36M31 and the modified TIP3P32 water model which is adjusted for CHARMM force field. GROMACSsuggested: (GROMACS, RRID:SCR_014565)Results from OddPub: Thank you for sharing your data.
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: Please consider improving the rainbow (“jet”) colormap(s) used on page 9. At least one figure is not accessible to readers with colorblindness and/or is not true to the data, i.e. not perceptually uniform.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
- No protocol registration statement was detected.
Results from scite Reference Check: We found no unreliable references.
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