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 |
|---|---|---|
| 9YFI | 2025 | 0 |
| 9YFB | 2025 | 0 |
| 9YAA | 2025 | 0 |
| 9Y9Y | 2025 | 0 |
| 9Y8H | 2025 | 0 |
| 9Y83 | 2025 | 0 |
| 9Y81 | 2025 | 0 |
| 9Y4U | 2025 | 0 |
| 9Y4S | 2025 | 0 |
| 9Q5C | 2025 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 7k43 | 7k4n | https://www.nature.com/articles/s41401-021-00851-w | Structure genomics of SARS-CoV-2 and its Omicron variant: drug design templates for COVID-19 | 2022 | C Wu, W Yin, Y Jiang, HE Xu- Acta Pharmacologica Sinica, 2022 - nature.com | on uncovering structures and functions for structural biology of SARS-CoV-2 and discuss important biological issues that remain to be addressed. We present the examples of structure - ... S2E12 (represented as a cyan surface) binds to the “up” conformation of SARS-CoV-2 S RBD (PDB: 7K4N); S2M11 (represented as a brown surface) binds to the “down” conformation of SARS-CoV-2 S RBD (PDB: 7K43); |
| 2 | 7k43 | - | https://www.nature.com/articles/s41467-022-28324-6 | Structural and biochemical rationale for enhanced spike protein fitness in delta and kappa SARS-CoV-2 variants | 2022 | JW Saville, D Mannar, X Zhu, SS Srivastava- Nature, 2022 - nature.com | (Ab1 - PDB ID: 7MJJ, Ab8 - PDB ID: 7MJH, S309 PDB ID: 6WPS, and S2M11 PDB ID: 7K43 ). b As in a but for two anti-NTD antibodies (4A8 - PDB ID: 7C2L and 48 - PDB ID: 7LQV) |
| 3 | 7k43 | - | https://www.sciencedirect.com/science/article/pii/S2211124722005344 | Structures of Omicron spike complexes and implications for neutralizing antibody development | 2022 | H Guo, Y Gao, T Li, T Li, Y Lu, L Zheng, Y Liu, T Yang- Cell reports, 2022 - Elsevier | The recently reported structural model PDB entry 7T9K (Mannar et al., 2022) was used as an initial template for model building of the Omicron Spike trimer and ACE2. PDB entry 7K43 |
| 4 | 7jzu | - | https://www.sciencedirect.com/science/article/pii/S002197972401422X | Bioengineered self-assembled nanofibrils for high-affinity SARS-CoV-2 capture and neutralization | 2024 | M Behbahanipour, S Navarro, O Brcenas- Journal of colloid and, 2024 - Elsevier | extracted from the Cryo-EM structure of the minibinder bound to the SARS-CoV-2 Spike protein ( pdb entry 7JZU ). However, due to the relatively low resolution of the structure (3.1 ), |
| 5 | 7jzu | - | https://www.pnas.org/doi/abs/10.1073/pnas.2413465122 | Structure-guided engineering of a mutation-tolerant inhibitor peptide against variable SARS-CoV-2 spikes | 2025 | S Nakamura, Y Tanimura, R Nomura, H Suzuki- Proceedings of the, 2025 - pnas.org | The initial phase was determined by molecular replacement with Phaser (48) using the RBD structure ( PDB code 7JZU ) as the search template. The atomic model was rebuilt by manual |
| 6 | 7jzn | - | https://www.cell.com/heliyon/fulltext/S2405-8440(25)01465-3?uuid=uuid%3Acd981904... | Novel method for prioritizing protein binding sites using pocket analysis and MD simulations | 2025 | AD Biswas, E Sabato, S Vittorio, P Aletayeb, A Pedretti- Heliyon, 2025 - cell.com | We picked a list of 8 resolved SARS-CoV-2 spike structures from the PDB by & 3 of 7JZN . (B) The spike protein conformational states are superimposed for each pair, with one structure |
| 7 | 7jzl | 7jzn | https://pubs.acs.org/doi/abs/10.1021/acs.jcim.1c00766 | Allosteric Control of Structural Mimicry and Mutational Escape in the SARS-CoV-2 Spike Protein Complexes with the ACE2 Decoys and Miniprotein Inhibitors: A | 2021 | GM Verkhivker, S Agajanian, DY Oztas- Journal of Chemical, 2021 - ACS Publications | Allosteric Control of Structural Mimicry and Mutational Escape in the SARS-CoV-2 Spike Protein Complexes with the ACE2 Decoys and Miniprotein Inhibitors: A Network-Based Approach for Mutational Profiling of Binding and Signaling |
| 8 | 7jzl | - | https://www.sciencedirect.com/science/article/pii/S0022283621003892 | A brief history of de novo protein design: minimal, rational, and computational | 2021 | DN Woolfson- Journal of Molecular Biology, 2021 - Elsevier | For comparison, the whole PDB is doubling in size approximately every 67 years. There are now over 100 structures of de novo peptides and proteins, which is a good resource ... Figure 2. A gallery of high-resolution de novo designed peptide and protein structures .. additional protein chains are shown in grey these are for protein fusions to the designs (6FES99) or with targeted protein-protein interactions (4OYD,5VID,6IWB,6XXV,7JZL,6YWC) |
| 9 | 7jzl | 7jzn | https://www.biorxiv.org/content/10.1101/2021.06.15.448568v1.abstract | Deep Mutational Scanning of Dynamic Interaction Networks in the SARS-CoV-2 Spike Protein Complexes: Allosteric Hotspots Control Functional Mimicry and | 2021 | G Verkhivker- bioRxiv, 2021 - biorxiv.org | pdb id 7KL9 (A), in the complex with the designed miniprotein binder LCB1, pdb id 7JZL (B) complex with the miniprotein LCB3, pdb id 7JZN (C). The structure is in ribbons with protomers A,B,C are colored in green, red and blue respectively |
| 10 | 7jzl | 7jzn | https://pmc.ncbi.nlm.nih.gov/articles/PMC12308813/ | Exploring the Intrinsic Structural Plasticity and Conformational Dynamics of Human Beta Coronavirus Spike Glycoproteins | 2025 | YF e Silva, HH Fokoue- Journal of Chemical, 2025 - pmc.ncbi.nlm.nih.gov | Such information was related to each PDB -ID, but within the trimeric bound structures , we evaluate whether each protomer has interactions with the ligands by calculating the number of |