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 |
|---|---|---|
| 7T35 | 2021 | 0 |
| 7T29 | 2021 | 0 |
| 7T24 | 2021 | 0 |
| 7SZV | 2021 | 0 |
| 7SZS | 2021 | 0 |
| 7SZP | 2021 | 0 |
| 7SYC | 2021 | 1 |
| 7SYB | 2021 | 0 |
| 7SY9 | 2021 | 0 |
| 7SWK | 2021 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 7r7n | - | https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(22)00311-5/fullt... | Monoclonal antibody therapies against SARS-CoV-2 | 2022 | D Focosi, S McConnell, A Casadevall- The Lancet Infectious, 2022 - thelancet.com | PDB 7K8M). Antibody binding classes 14 are displayed as mesh space-filling. (C) Structures in complex with a single RBD domain ( PDB 6XEY). Antibody binding classes RBS-A, RBS- ... S2D10633 7r7n RBM class III* |
| 2 | 7r7n | - | https://www.nature.com/articles/s41467-022-28882-9 | Cryo-EM structure of a SARS-CoV-2 omicron spike protein ectodomain | 2022 | G Ye, B Liu, F Li- Nature communications, 2022 - nature.com | The atomic models generated in this study have been deposited into the PDB with accession number 7TGW (omicron open spike), 7TGX (prototypic open spike), and 7TGY (prototypic ... Forty-nine PDBs of neutralizing antibody/RBD complexes were analyzed using PDBePISA ... 7r7n, 7sn2. Fab: antigen-binding fragment. |
| 3 | 7n8i | - | https://www.nature.com/articles/s41592-022-01645-6 | Improved AlphaFold modeling with implicit experimental information | 2022 | TC Terwilliger, BK Poon, PV Afonine, CJ Schlicksup- Nature, 2022 - nature.com | To emulate the situation where no similar structure is present in the PDB , templates from the PDB were not used. For each protein we then examined the four AlphaFold models |
| 4 | 7m53 | - | https://www.cell.com/immunity/pdf/S1074-7613(23)00079-1.pdf | Broadly neutralizing anti-S2 antibodies protect against all three human betacoronaviruses that cause deadly disease | 2023 | P Zhou, G Song, H Liu, M Yuan, W He, N Beutler, X Zhu- Immunity, 2023 - cell.com | Glycan molecules (sticks, white) were modeled (based on structure in PDB : structures . Key epitope residues are buried in the stem-helix bundle (green) in prefusion spike... Figure S7. Structural comparison of antibodies targeting the coronavirus spike S2 stem helix. ... CV3-25 (7NAB), B6 (7M53), and IgG22 (7S3N). S |
| 5 | 7ly3 | 7ral | https://www.cell.com/cell-reports/pdf/S2211-1247(22)00798-7.pdf | Cryo-EM structures of SARS-CoV-2 Omicron BA. 2 spike | 2022 | V Stalls, J Lindenberger, SMC Gobeil, R Henderson- Cell Reports, 2022 - cell.com | The structures used in this analysis included PDB IDs 7KE8 (G6141), 7KE6 (G6142), 7KE7 (G6143), 7KE4 (G6144), 7LWS (Alpha), 7LYL (Beta), 8CSA (TM), 7LWL (Mk1), 7LWI (Mk2), |
| 6 | 7lxy | - | https://www.nature.com/articles/s41467-022-32262-8 | SARS-CoV-2 variants of concern: spike protein mutational analysis and epitope for broad neutralization | 2022 | D Mannar, JW Saville, Z Sun, X Zhu, MM Marti- Nature, 2022 - nature.com | structure , ACE2 affinity, and evasion of antibodies afforded by previously emerged variant spikes, providing a general structural coordinates ( PDB code 7MJG, 7MJM, 7MJN, 7LXY , 7K43 |
| 7 | 7lxy | 7ly2, 7lxz, 7ly3 | https://www.nature.com/articles/s41423-021-00752-2 | Neutralizing antibodies for the prevention and treatment of COVID-19 | 2021 | L Du, Y Yang, X Zhang- Cellular & Molecular Immunology, 2021 - nature.com | Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) initiates the infection process by binding to the viral cellular receptor angiotensin-converting enzyme 2 through the receptor-binding domain (RBD) in the S1 subunit of the viral spike (S) protein. ... a–e Cryo-EM structures of the SARS-CoV-2 S trimer bound to NTD-targeting nAbs a S2L28 (PDB 7LXZ), b S2M28 (PDB 7LY2), c S2X333 (PDB 7LXY), d 4-8 (PDB 7LQV), and e 4A8 (PDB 7C2L). |
| 8 | 7lxw | 7lxx, 7ly0, 7soa, 7sof, 7ly3 | https://www.cell.com/cell-reports/pdf/S2211-1247(22)01868-X.pdf | Structural analysis of receptor engagement and antigenic drift within the BA. 2 spike protein | 2023 | JW Saville, D Mannar, X Zhu, AM Berezuk, S Cholak- Cell Reports, 2023 - cell.com | Cryo-EM structures of the BA.2 S-human ACE2 complex and of the extensively mutated BA.2 Our analysis reveals structural mechanisms underlying the antigenic drift in the rapidly |
| 9 | 7k4n | - | https://www.nature.com/articles/s41564-021-00972-2 | Genetic and structural basis for SARS-CoV-2 variant neutralization by a two-antibody cocktail | 2021 | J Dong, SJ Zost, AJ Greaney, TN Starr- Nature, 2021 - nature.com | Understanding the molecular basis for immune recognition of SARS-CoV-2 spike glycoprotein antigenic sites will inform the development of improved therapeutics. We determined the structures of two human monoclonal antibodiesAZD8895 and AZD1061which form the basis ... A comparison of the cryo-EM structure of S2E12 in complex with the S glycoprotein (PDB ID: 7K4N) suggests that the mAb S2E12 likely uses nearly identical antibody–RBD interactions as those of AZD8895 |
| 10 | 7k45 | - | https://www.nature.com/articles/S41591-021-01294-w | Resistance of SARS-CoV-2 variants to neutralization by monoclonal and serum-derived polyclonal antibodies | 2021 | RE Chen, X Zhang, JB Case, ES Winkler, Y Liu- Nature medicine, 2021 - nature.com | Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused the global COVID-19 pandemic. Rapidly spreading SARS-CoV-2 variants may jeopardize newly introduced antibody and vaccine countermeasures. Here, using monoclonal antibodies (mAbs), animal ... Structures of the SARS-CoV-2 RBD in complex with a representative neutralizing antibody from (a) class 1 (S2E12, PDB: 7K45), or (b) class 2 (S309, PDB: 6WPS). |