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 |
|---|---|---|
| 9ZPG | 2025 | 0 |
| 9ZPU | 2025 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 7jx3 | - | https://www.nature.com/articles/s42003-023-04782-6 | Structural basis of spike RBM-specific human antibodies counteracting broad SARS-CoV-2 variants | 2023 | K Shitaoka, A Higashiura, Y Kawano- Communications, 2023 - nature.com | package with the combination of RBD structure ( PDB ID:7EAM) and Fab structures ( PDB ID:7CHB and 7CHP) as search models. The structure refinement was performed using the ... Class 3b/S309 (PDB ID:7JX3), Class 4a/CR3022 (PDB ID:6ZLR), Class 4b/S2X259 (PDB ID:7M7W), and Class 5/S2H97 (PDB ID:7M7W) open data were used in Fig. 3a. |
| 2 | 7jxc | 7jxe, 7jxd | https://www.sciencedirect.com/science/article/pii/S0092867421000805 | Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity | 2021 | EC Thomson, LE Rosen, JG Shepherd, R Spreafico- Cell, 2021 - Elsevier | / pdb /surface_glycoprotein/SARS-CoV-2/6m0j/isolde/notes.txt. The 1r42 refined structure differs from the PDB -deposited structure (copied from the 6m17 PDB structure ). ... Key resources table S2H13, S2H14, S2A4, S2X35 IgG Piccoli et al., 2020 PDB: 7JV2, 7JXC, 7JXD, 7JXE |
| 3 | 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 |
| 4 | 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 |
| 5 | 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) |
| 6 | 7jzl | 7jzm, 7jzn, 7jzu | https://advanced.onlinelibrary.wiley.com/doi/abs/10.1002/adhm.202503487 | Multivalent Protein Nanorings for Broad and Potent SARSCoV2 Neutralization | 2025 | M Behbahanipour, C Goldin, CA Prato- Advanced, 2025 - Wiley Online Library | ), their structural orientation within each differs. Both LCB1 and LCB3 are small 3-helix bundles, but whereas LCB1 ( PDB ID 7JZL ) binds in an up-down-up orientation, LCB3 ( PDB ID |
| 7 | 7jzl | - | https://www.nature.com/articles/s41598-025-12444-2 | Fusion of SARS-CoV-2 neutralizing LCB1 peptide with Bacillus amyloliquefaciens RNase improves antiviral efficacy | 2025 | NN Kostin, TV Bobik, EV Konovalova- Scientific Reports, 2025 - nature.com | structural interaction with the trimeric spike ( PDB : 7JZL ). Its in vivo efficacy has been demonstrated in multiple studies, including in transgenic mouse models 14 . Moreover, its compact |
| 8 | 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 |
| 9 | 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 |
| 10 | 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 |