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 |
|---|---|---|
| 8T7W | 2023 | 0 |
| 8T7Z | 2023 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 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 |
| 2 | 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... |
| 3 | 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; |
| 4 | 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 |
| 5 | 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 |
| 6 | 6vxx | - | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7505244/ | Comparative molecular docking analysis of the SARS CoV-2 Spike glycoprotein with the human ACE-2 receptors and thrombin | 2020 | P Bhanu, NH Kumar, SH Kumar, M Relekar- , 2020 - ncbi.nlm.nih.gov | PDB ID, Ligand, Binding Pose, Binding Energy (Kcal/mol), RMSD, Receptor, Bond Length ( Figure 1a: Structural representation of 6VXX and thrombin, Figure 1b: Molecular interaction of with the 7th pose, Key - the sticks represents thrombin, the secondary structure represents the |
| 7 | 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 |
| 8 | 6vyb | 6vxx | https://link.springer.com/article/10.1007/s40495-021-00259-4 | Phytocompounds of Rheum emodi, Thymus serpyllum, and Artemisia annua Inhibit Spike Protein of SARS-CoV-2 Binding to ACE2 Receptor: In Silico | 2021 | R Rolta, D Salaria, PP Sharma, B Sharma- Current pharmacology, 2021 - Springer | -CoV-2 spike ectodomain structure ( 6VYB , open state) with a ( PDB ID: 6VXX, and 6VYB ) have 6Na + ions to neutralize complexes. The artemisinin complexes with 6VXX and 6VYB |
| 9 | 6vyb | - | https://www.tandfonline.com/doi/abs/10.1080/07391102.2020.1778537 | Ethnomedicines of Indian origin for combating COVID-19 infection by hampering the viral replication: using structure-based drug discovery approach | 2021 | S Alagu Lakshmi, RMB Shafreen, A Priya- Structure and, 2021 - Taylor & Francis | CoV-2 main protease ( PDB ID: 5R82. pdb ), spike protein ( PDB ID: 6VYB . pdb ) and human In order to minimize the energy, PDB structures of the target proteins were refined through for combating COVID-19 infection by hampering the viral replication: using structure -based drug |
| 10 | 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 |