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.
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 6xdh | - | https://academic.oup.com/bib/article-abstract/22/2/769/6067883 | SARS-CoV-2 3D database: understanding the coronavirus proteome and evaluating possible drug targets | 2021 | AF Alsulami, SE Thomas, AR Jamasb- Briefings in, 2021 - academic.oup.com | release of the SARS-CoV-2 genome sequence in March 2020, there has been an international focus on developing target-based drug discovery, which also requires knowledge of the 3D structure of the proteome. Where there are no experimentally solved structures , our group ... (v) Nsp15 (Uridylate specific endoribonuclease)—PDB Id: 6XDH. |
| 2 | 6xk2 | - | https://www.nature.com/articles/s41467-024-50955-0 | Accurate prediction of protein function using statistics-informed graph networks | 2024 | YJ Jang, QQ Qin, SY Huang, ATJ Peter- Nature, 2024 - nature.com | The scores are mapped to color the MgIA 3D structure ( PDB ID: 6IZW) from lower (blue) to higher (red), GDP is shown with sphere in yellow, SO 4 in stick in cyan, and Mg 2+ ion in a ... The activation scores are mapped to the tertiary structures of nine proteins, including ... Tyrosine-protein kinase BTK (TpK-BTK, PDB ID: 6W8I), Ribokinase (PDB ID: 6XK2), alpha-lactalbumin (αLA, PDB ID: 1HFX) |
| 3 | 6xmy | - | https://www.nature.com/articles/s41467-023-40928-0 | Protein engineering and iterative multimodule optimization for vitamin B6 production in Escherichia coli | 2023 | L Liu, J Li, Y Gai, Z Tian, Y Wang, T Wang, P Liu- Nature, 2023 - nature.com | docked into the binding pocket according to the crystal structure PDB 1PS6 and PDB 6XMY The crystal structure of PdxJ ( PDB 1M5W) showed that the octameric enzyme possesses |
| 4 | 7jv2 | 7jx3 | https://pubs.acs.org/doi/abs/10.1021/acscentsci.1c00216 | Molecular Aspects Concerning the Use of the SARS-CoV-2 Receptor Binding Domain as a Target for Preventive Vaccines | 2021 | Y Valdes-Balbin, D Santana-Mederos- ACS Central, 2021 - ACS Publications | The development of recombinant COVID-19 vaccines has resulted from scientific progress made at an unprecedented speed during 2020. The recombinant spike glycoprotein monomer, its trimer, and its re... Structural analyses were performed from PDB: 6M0J for the complex ACE2–RBD, (9) PDB: 7BZ5 for B38, (85) PDB: 7BYR for BD23, (86) PDB: 6XEY for Fab2-4, (87) PDB: 7BWJ for P2B-2F6, (88) PDB: 7JV2 for S2H13 |
| 5 | 7jv2 | 7jva | https://www.cell.com/cell-reports/pdf/S2211-1247(21)01652-1.pdf | Structural analysis of receptor binding domain mutations in SARS-CoV-2 variants of concern that modulate ACE2 and antibody binding | 2021 | D Mannar, JW Saville, X Zhu, SS Srivastava- Cell reports, 2021 - cell.com | See Table S2 for PDB entries included in this analysis. (D) Structural overlap of all antibodies selected on the SARSCoV-2 RBD. Mutational positions within the RBD are highlighted. (E) |
| 6 | 7jv2 | 7k43, 7jva, 7km8 | https://www.science.org/doi/abs/10.1126/science.abh1139 | Structural and functional ramifications of antigenic drift in recent SARS-CoV-2 variants | 2021 | M Yuan, D Huang, CCD Lee, NC Wu, AM Jackson- Science, 2021 - science.org | We therefore investigated the structural and functional 4 ( PDB 6XEY) (27) are shown in pink and light pink, respectively; S2M11 ( PDB 7K43) (30) in orange and yellow; C121 ( PDB 7K8X |
| 7 | 7jv2 | 7jvc, 7jw0, 7ra8, 7ral | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1010260 | Structural and antigenic variations in the spike protein of emerging SARS-CoV-2 variants | 2022 | A Mittal, A Khattri, V Verma- PLoS Pathogens, 2022 - journals.plos.org | Recent structural and functional studies have mapped the -CoV-2 variants; (2) the structural basis for antibody-mediated fitness, and in conjunction with the structures of the spike-nAb ... the neutralization mechanism involves direct competition with the ACE2 receptor. These antibodies include C002 (PDB: 7K8S) [70], C104 (PDB: 7K8U) [70], S2H13 (PDB: 7JV2) [77], C119 (PDB: 7K8U) [70], C121 (PDB: 7K8X) [70], LY-CoV555 (PDB: 7KMG), DH1041 (7LAA), COVA2-15 (EMD-22061) [82], 2–43 (EMD-22275) [94], |
| 8 | 7jva | - | https://www.nature.com/articles/s41467-023-35949-8.pdf | Structural basis for a conserved neutralization epitope on the receptor-binding domain of SARS-CoV-2 | 2023 | KYA Huang, X Chen, A Mohapatra- Nature, 2023 - nature.com | PDB code 7M7B for 3D11 and 7JVA for S2A4. c IS-9A and similar antibodies extend their footprints upwards and contact residue 408 and the residues 502-504 region. |
| 9 | 7jvc | - | https://link.springer.com/article/10.1186/s12951-025-03243-y | A bivalent spike-targeting nanobody with anti-sarbecovirus activity | 2025 | IC Swart, OJ Debski-Antoniak, A Zegar- Journal of, 2025 - Springer | Structural alignment of an ACE2 RBD structure ( PDB : 6VW1) [37] with a single molecule of 7F and single RBD showed that the interaction major-interface would not hinder ACE2 |
| 10 | 7jw0 | 7k45, 7lxy, 7so9, 7sob | https://academic.oup.com/ve/article-abstract/11/1/veaf027/8159764 | Comprehensive analysis of SARS-CoV-2 Spike evolution: epitope classification and immune escape prediction | 2025 | NFB Teruel, M Crown, R Rajsbaum, M Bashton- Virus, 2025 - academic.oup.com | to epitope 3 from structures 7A5R, 6W41, 7LM8, 7S5Q, 7JW0 , 7X1M, and 7R6X. Comparing all the vectors of interaction for S309, we see that one Kappa structure ( PDB 7SOB), from |