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 |
|---|---|---|
| 7N56 | 2021 | 0 |
| 7N4D | 2021 | 0 |
| 7N1L | 2021 | 0 |
| 7MYS | 2021 | 0 |
| 7MYQ | 2021 | 0 |
| 7MMZ | 2021 | 1 |
| 7MIW | 2021 | 0 |
| 7MI0 | 2021 | 0 |
| 7MHV | 2021 | 0 |
| 7MHB | 2021 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 6wpt | 7jw0, 7jv6, 7k4n, 7k43, 7jvc | https://www.nature.com/articles/s41422-021-00487-9 | Structural basis for bivalent binding and inhibition of SARS-CoV-2 infection by human potent neutralizing antibodies | 2021 | R Yan, R Wang, B Ju, J Yu, Y Zhang, N Liu, J Wang- Cell research, 2021 - nature.com | Neutralizing monoclonal antibodies (nAbs) to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) represent promising candidates for clinical intervention against coronavirus disease 2019 (COVID-19). We isolated a large number of nAbs from SARS-CoV-2-infected ... Besides, there are some special antibodies that can compete ACE2 binding while bind to RBD with different patterns. We assigned these antibodies into class IV which contains S309 (PDB code: 6WPT), C110 (PDB code: 7K8V) and C135 (PDB code |
| 2 | 6wpt | - | https://www.ncbi.nlm.nih.gov/pmc/articles/pmc8144490/ | Synthesis and cytotoxic activity of novel Indole derivatives and their in silico screening on spike glycoprotein of SARS-CoV-2 | 2021 | P Gobinath, DA Ponnusamy Packialakshmi- Frontiers in molecular, 2021 - ncbi.nlm.nih.gov | molecular protein crystal structure of spike glycoprotein of SARS-CoV-2 PDB ID 6WPT The ligand preparation module optimized the ligand 3D structure of selected molecules to remove molecular interaction analysis with selected small molecules of (1c) with 6WPT protein was |
| 3 | 6wpt | - | https://www.nature.com/articles/s41467-020-18058-8 | A cross-reactive human IgA monoclonal antibody blocks SARS-CoV-2 spike-ACE2 interaction | 2020 | M Ejemel, Q Li, S Hou, ZA Schiller, JA Tree- Nature, 2020 - nature.com | COVID-19 caused by SARS-CoV-2 has become a global pandemic requiring the development of interventions for the prevention or treatment to curtail mortality and morbidity. No vaccine to boost mucosal immunity, or as a therapeutic, has yet been developed to SARS-CoV-2. ... However, this predicted epitope of MAb362 is different from the other recently reported MAb complexes to the SARS-CoV-2-RBD (Fig. 3c and Supplementary Fig. 5), including: CR302217 (PDB: 6W41); S30916 (PDB: 6WPT); REGN10933 and REGN1098725; |
| 4 | 6wpt | 6wps | https://pubs.acs.org/doi/abs/10.1021/acs.jctc.0c01144 | Structure, Dynamics, Receptor Binding, and Antibody Binding of the Fully Glycosylated Full-Length SARS-CoV-2 Spike Protein in a Viral Membrane | 2021 | YK Choi, Y Cao, M Frank, H Woo, SJ Park- Journal of chemical, 2021 - ACS Publications | The spike (S) protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) mediates host cell entry by binding to angiotensin-converting enzyme 2 (ACE2) and is considered the major target for drug and vaccine development. We previously built fully glycosylated full-length SARS-CoV-2 S protein models in a viral membrane ... In the cryo-EM structure of the S trimer in the complex with the S309 antibody (PDB ids: 6WPS and 6WPT(51)), S309 interacts with the glycan attached to N343. |
| 5 | 6wps | 7jw0, 7jxe, 7jv2, 7k43, 7jvc | https://www.mdpi.com/965720 | Structural analysis of neutralizing epitopes of the SARS-CoV-2 spike to guide therapy and vaccine design strategies | 2021 | MT Finkelstein, AG Mermelstein, E Parker Miller- Viruses, 2021 - mdpi.com | Multiple structures of S in complex with ACE2 have been determined [9,17,21,22,26 S proteins from SARS-CoV, SARS-CoV-2, and MERS-CoV undergo dramatic structural changes to S2 forms an elongated structure , and the two heptad repeats, HR1 and HR2, eventually form a ... S2M11 from RBM Class III (PDB ID 7K43 [71]), and CR3022 (left) and S309 (right) from RBD Core (PDB IDs 6W41 [86] and PDB ID 6WPS [ |
| 6 | 6wps | - | https://www.ncbi.nlm.nih.gov/pmc/articles/pmc7457611/ | Structural classification of neutralizing antibodies against the SARS-CoV-2 spike receptor-binding domain suggests vaccine and therapeutic strategies | 2020 | CO Barnes, CA Jette, ME Abernathy, KMA Dam- bioRxiv, 2020 - ncbi.nlm.nih.gov | 1g) that were isolated from the same donor 5 . They share structural similarities with each other and with other VH353/short 1) and C144 Fab (from C144-S structure ) aligned on a RBD monomer. ACE2 ( PDB 6M0J; light green surface) is aligned on the same RBD for reference ... Composite model of C135-RBD (blue and gray, respectively) overlaid with the SARS-CoV-2 NAb S309 (sand, PDB 6WPS) and soluble ACE2 |
| 7 | 6wps | 7jw0, 7k45, 7jx3, 7jv6, 7jva, 7jvc | https://pubs.rsc.org/en/content/articlehtml/2021/sc/d1sc01203g | Prediction and mitigation of mutation threats to COVID-19 vaccines and antibody therapies | 2021 | J Chen, K Gao, R Wang, GW Wei- Chemical science, 2021 - pubs.rsc.org | Our predictions are built from the X-ray crystal structure of SARS-CoV-2 S protein and ACE2 ( PDB 6M0J), 57 and various antibodies (PDBs 6WPS , 66 6XC2, 58 6XC3, 58 6XC4, 58 6XC7, 58 6XE1, 64 6XEY, 83 6XKP, 72 6XKQ, 72. |
| 8 | 6wps | - | https://www.biorxiv.org/content/10.1101/2021.01.25.427846v1.abstract | SARS-CoV-2 receptor binding mutations and antibody mediated immunity. | 2021 | M Mejdani, K Haddadi, C Pham, R Mahadevan- BioRxiv, 2021 - biorxiv.org | 39 ( PDB : 7JMP), CV07- 250 ( PDB : 6XKQ), P2B-2F6 ( PDB : 7BWJ), CV07-270 ( PDB : 6XKP), BD-368-2 ( PDB : 7CHE), and S309 ( PDB : 6WPS ) 53 Laskowski, RA PDBsum: summaries and analyses of PDB structures Fig.1: Structure of SARS-CoV-2 RBD bound to ACE2 receptor |
| 9 | 6wps | 6vxx | https://academic.oup.com/nar/article-abstract/49/D1/D282/5901966 | CoV3D: a database of high resolution coronavirus protein structures | 2021 | R Gowthaman, JD Guest, R Yin- Nucleic acids, 2021 - academic.oup.com | (A) Visualization of the superposed spike RBD complexes with antibody S309 ( PDB code 6WPS ) ( 20 ) and (B) A trimeric spike structure in RBD-closed conformation ( 5 ) ( PDB code 6VXX Park YJ, Tortorici MA, Wall A., McGuire AT and Veesler D. (2020) Structure , Function, and |
| 10 | 6wps | - | https://academic.oup.com/glycob/advance-article-abstract/doi/10.1093/glycob/cwab... | Modernized uniform representation of carbohydrate molecules in the Protein Data Bank | 2021 | C Shao, Z Feng, JD Westbrook, E Peisach- , 2021 - academic.oup.com | glycan structures (eg, SARS-CoV-2 protein-carbohydrate complex PDB ID 6WPS ) and the partnership is committed to maintaining consistency and accuracy across the PDB archive by regularly reviewing data processing procedures and carrying out structure remediation efforts |