We are actively tracking the number of publications by the scientific community which reference our structures, whether in the main text, figure captions or supplementary material. Selected articles are manually reviewed. Publications by SSGCID authors are excluded from the manually reviewed list. From our manual curation results, we estimate that the false positive rate might be as high as 50% for some structures.
This list was obtained from Google Scholar searches using an API provided by Christian Kreibich.
| Structure | Year released | #citations |
|---|---|---|
| 8CTR | 2022 | 0 |
| 8CSO | 2022 | 0 |
| 7V0H | 2022 | 0 |
| 7USB | 2022 | 0 |
| 7US9 | 2022 | 0 |
| 7US6 | 2022 | 0 |
| 7UME | 2022 | 0 |
| 7UMD | 2022 | 0 |
| 7ULZ | 2022 | 0 |
| 7ULH | 2022 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 6vyb | - | https://www.mdpi.com/1034566 | Metal-Bound Methisazone; Novel Drugs Targeting Prophylaxis and Treatment of SARS-CoV-2, a Molecular Docking Study | 2021 | A Abdelaal Ahmed Mahmoud M Alkhatip- International Journal of, 2021 - mdpi.com | SARS-CoV-2 currently lacks effective first-line drug treatment. We present promising data from in silico docking studies of new Methisazone compounds (modified with calcium, Ca; iron, Fe; magnesium, Mg; manganese, Mn; or zinc, Zn) designed to bind more strongly to key proteins ... We found that the highest binding interactions were found with the spike protein (6VYB), with the highest overall binding being observed with Mn-bound Methisazone at −8.3 kcal/mol, |
| 2 | 6vyb | - | https://link.springer.com/article/10.1007/s11224-020-01723-5 | Combination and tricombination therapy to destabilize the structural integrity of COVID-19 by some bioactive compounds with antiviral drugs: insights from | 2021 | HR Abd El-Mageed, DA Abdelrheem, SA Ahmed- Structural Chemistry, 2021 - Springer | SARS-CoV-2 main protease ( PDB ID: 6LU7), (5b) SARS-CoV-2 spike protein domain ( PDB ID: 6VYB ), and (5c) human entry receptor ACE2 ( PDB ID: 1R42 validation was carried out using our previously published work [36] with re-docking of the co-crystal structure (N3) as an |
| 3 | 6vyb | - | https://link.springer.com/article/10.1007/s11224-020-01586-w | Destabilizing the structural integrity of COVID-19 by caulerpin and its derivatives along with some antiviral drugs: An in silico approaches for a combination | 2020 | SA Ahmed, DA Abdelrheem, HR Abd El-Mageed- Structural Chemistry, 2020 - Springer | Protein preparation. The 3D crystal structure of the SARS-CoV-2 main protease Mpro ( PDB ID: 6LU7) and the cryo-electron microscopic structure of the SARS-CoV-2 spike protein Sp ( PDB ID: 6VYB ) were taken from the PDB (Protein Data Bank) site |
| 4 | 6vxx | - | https://www.nature.com/articles/s41392-020-00392-4 | Bimodular effects of D614G mutation on the spike glycoprotein of SARS-CoV-2 enhance protein processing, membrane fusion, and viral infectivity | 2020 | X Jiang, Z Zhang, C Wang, H Ren, L Gao- Signal transduction and, 2020 - nature.com | structure of S glycoprotein, we performed three-dimensional (3D) modeling with the template of published SARS-CoV-2 S structure ( 6vxx . pdb ) by the idea that the D614G mutation may affect the stability of the S protein trimer as suggested above based on structural analysis (Fig |
| 5 | 6vxx | 6vyb | https://pubs.rsc.org/en/content/articlehtml/2021/ra/d0ra09555a | Interaction analyses of SARS-CoV-2 spike protein based on fragment molecular orbital calculations | 2021 | K Akisawa, R Hatada, K Okuwaki, Y Mochizuki- RSC Advances, 2021 - pubs.rsc.org | Here, we report on interaction analyses of the spike protein in both closed ( PDB -ID: 6VXX ) and open interaction energies were evaluated for both structures , and a mutual comparison indicated considerable losses of stabilization energies in the open structure , especially in |
| 6 | 6vxx | - | https://pubs.acs.org/doi/abs/10.1021/acs.jpcb.0c04553 | Developing a fully glycosylated full-length SARS-CoV-2 spike protein model in a viral membrane | 2020 | H Woo, SJ Park, YK Choi, T Park- The Journal of, 2020 - ACS Publications | This technical study describes all-atom modeling and simulation of a fully glycosylated full-length SARS-CoV-2 spike (S) protein in a viral membrane. First, starting from PDB: 6VSB and 6VXX, full-l... |
| 7 | 6vxx | - | https://pubs.acs.org/doi/abs/10.1021/acsmedchemlett.0c00410 | Structural impact of mutation D614G in SARS-CoV-2 spike protein: enhanced infectivity and therapeutic opportunity | 2020 | A Fernndez- ACS medicinal chemistry letters, 2020 - ACS Publications | Figure 1. Structural and epistructural interactions at the S1/S2 interface in the spike protein of SARS-CoV-2. (a) Positioning of D614 in the S1 chain (magenta) relative to T859 in the S2 chain (blue) at the S1/S2 interface for the spike protein structure reported in PDB6VXX |
| 8 | 6vxx | - | https://academic.oup.com/nar/article-abstract/49/D1/D437/5992282 | RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental | 2021 | SK Burley, C Bhikadiya, C Bi, S Bittrich- Nucleic acids, 2021 - academic.oup.com | Biology; Nucleic Acid Enzymes; RNA and RNA-protein complexes; Structural Biology; Synthetic Biology and Bioengineering; Methods Online; Surveys and Summaries; Database; Web Server. Advance articles; Submit: Author Guidelines; |
| 9 | 6vxx | - | https://www.tandfonline.com/doi/abs/10.1080/07391102.2020.1852117 | Virtual screening of phytoconstituents from miracle herb nigella sativa targeting nucleocapsid protein and papain-like protease of SARS-CoV-2 for COVID-19 | 2022 | S Siddiqui, S Upadhyay, R Ahmad- Structure and, 2022 - Taylor & Francis | spike glycoprotein (closed state, PDB ID: 6VXX ), spike glycoprotein (open state, PDB ID: structures were subjected to refinements and energy minimizations. Whole pdb structures of |
| 10 | 6vxx | 6vyb | https://www.ncbi.nlm.nih.gov/pmc/articles/pmc7337389/ | Glycans on the SARS-CoV-2 spike control the receptor binding domain conformation | 2020 | R Henderson, RJ Edwards, K Mansouri, K Janowska- bioRxiv, 2020 - ncbi.nlm.nih.gov | this map yielding a structure aligning to the unmutated 2P structure ( PDB ID 6VXX ) with a one RBD 'up' state structure fit to this map to its unmutated counterpart ( PDB ID 6VYB N234A mutation (Figure 3E and andF).F). However, the limited resolution of this structure limits close |