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 | 4q6u | - | https://www.sciencedirect.com/science/article/pii/S1369527421000102 | PAS domains in bacterial signal transduction | 2021 | EC Stuffle, MS Johnson, KJ Watts- Current Opinion in Microbiology, 2021 - Elsevier | ad) PAS monomer structures : (a) The PAS structural prototype photoactive dimer bound to heme cofactor (Fe 3+ , PDB : 4HI4, [25]) and a liganded monomer with cyanomet heme (Fe 3+ -CN, PDB : 3VOL, [31 For clarity, b-type heme is only shown bound to the liganded structure |
| 2 | 4ix8 | - | https://link.springer.com/protocol/10.1007/978-1-0716-1036-7_12 | Mustguseal and Sister Web-Methods: A Practical Guide to Bioinformatic Analysis of Protein Superfamilies | 2021 | D Suplatov, Y Sharapova, V vedas- Multiple Sequence Alignment, 2021 - Springer | etc.): 3WGB, 2W7E, 3A2B, 1IBJ, 1LKC, 1 V72, 2BKW, 2EZ2, 4IX8 , 1QZ9, 4BA5 The missing loop regions in these PDB structures were reconstructed using the MODELLER software [23] enzymes, the MATT algorithm was used to prepare the initial 3D- structure superimposition of -- This is not a duplicate of their earlier 2018 work |
| 3 | 6nb3 | - | https://pubs.acs.org/doi/abs/10.1021/acsmedchemlett.1c00263 | Discovery of Small Molecule Entry Inhibitors Targeting the Fusion Peptide of SARS-CoV-2 Spike Protein | 2021 | X Hu, CZ Chen, M Xu, Z Hu, H Guo, Z Itkin- ACS Medicinal, 2021 - ACS Publications | SARS-CoV-2 entry into host cells relies on the spike (S) protein binding to the human ACE2 receptor. In this study, we investigated the structural dynamics of the viral S protein at the fusion pept... Comparison of the FP binding pocket of the spike protein of SARS-CoV-2 (PDB 6XR8), SARS-CoV-1 (PDB 5WRG), and MERS (PDB 6NB3). The spike protein is rendered in ribbons with the FP colored in magenta and the HR1 domain in blue. |
| 4 | 6cum | - | https://onlinelibrary.wiley.com/doi/abs/10.1107/S2059798321004368 | Introduction to molecular replacement: a time perspective | 2021 | E Dodson- Acta Crystallographica Section D: Structural, 2021 - Wiley Online Library | the phase error between the correct value and the phases generated from the best solution; Dphi_DM, the phase error after density modification, which was performed with Parrot, except for PDB entry 6cum , which used Rebuilt?, Yes if the test structure could be rebuilt |
| 5 | 6nb3 | - | https://www.mdpi.com/1999-4915/13/8/1615 | What Binds Cationic Photosensitizers Better: Brownian Dynamics Reveals Key Interaction Sites on Spike Proteins of SARS-CoV, MERS-CoV, and SARS-CoV-2 | 2021 | V Fedorov, E Kholina, S Khruschev, I Kovalenko- Viruses, 2021 - mdpi.com | M-protein defines the shape of the viral envelope organizing CoVs assembly in the interaction with all other major structural proteins [9 Computational virology tools contribute greatly to the understanding of viral structure , infectivity and pathogenesis, and design of antiviral drugs ... The models of S-proteins of SARS-CoV and MERS-CoV were based on cryo-EM structures from the Protein Data Bank (PDB) with IDs 6NB3 and 5X58, respectively. |
| 6 | 5i1f | - | https://www.jbc.org/article/S0021-9258(21)00156-3/abstract | Bacillus subtilis YngB contributes to wall teichoic acid glucosylation and glycolipid formation during anaerobic growth | 2021 | CH Wu, J Rismondo, RML Morgan, Y Shen- Journal of Biological, 2021 - ASBMB | Section of Structural and Synthetic Biology, Department of Infectious Disease, Imperial College London, London, United Kingdom The crystal structure of YngB revealed that the protein has the typical fold and all necessary active site features of a functional UGPase |
| 7 | 6brl | - | https://onlinelibrary.wiley.com/doi/abs/10.1002/jimd.12387 | Metabolic impact of pathogenic variants in the mitochondrial glutamyltRNA synthetase EARS2 | 2021 | M Ni, LF Black, C Pan, H Vu, J Pei, B Ko- Journal of Inherited, 2021 - Wiley Online Library | 3A and B). Structural modeling of human EARS2 was obtained from the SWISS-MODEL Page 10. repository (Bienert et al 2017) based on the crystal structure of the glutamyl-tRNA synthetase from Elizabethkingia meningosepticum ( PDB : 6brl ), and superimposed on the crystal |
| 8 | 6nbo | - | https://www.sciencedirect.com/science/article/pii/S0022286021007304 | Synthesis and investigation of heterocyclic systems as pharmacological agents with conformational study and surface activity | 2021 | R El-Sayed, I Althagafi, M Morad, SM El-Bahy- of Molecular Structure, 2021 - Elsevier | The structure of recent products was illustrated by IR and 1 HNMR spectra a) and virtual simulation was accomplished upon harmful pathogen-protein as co-crystalline PDB file 3coi, 5ahi, 6nbo and 6ocr co-crystal proteins obtained from Protein Database (RCSB PDB : Homepage |
| 9 | 6nbo | - | https://www.sciencedirect.com/science/article/pii/S0269749120364927 | Purification, characterization, and catalytic mechanism of N-Isopropylammelide isopropylaminohydrolase (AtzC) involved in the degradation of s-triazine | 2021 | N Zhou, J Wang, W Wang, X Wu- Environmental Pollution, 2021 - Elsevier | The structural architecture of AtzC resembled that of cytosine deaminase in class III Purification and structural characterization of AtzE produced by the model bacterium Pseudomonas sp and substrate specificity of AtzC were studied, and the function, structure , and evolutionary |
| 10 | 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 |