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 | 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 |
| 2 | 6nb3 | - | https://convite.cenditel.gob.ve/revistaclic/index.php/revistaclic/article/view/1... | Origen del SARS-CoV-2 desde una perspectiva Bioinformtica | 2021 | R Isea- Conocimiento Libre y Licenciamiento (CLIC), 2021 - convite.cenditel.gob.ve | 6NB3 1359 MERS-CoV secuencias de la glicoprotena de espcula S que han sido recopiladas en la base de datos de protenas PDB Sequence analysis and structure predition of SARS-CoV-2 accesory proteins 9b and ORF14: evolutionary analysis indicates close |
| 3 | 6vyb | - | https://www.tandfonline.com/doi/abs/10.1080/07391102.2020.1778537 | Ethnomedicines of Indian origin for combating COVID-19 infection by hampering the viral replication: using structure-based drug discovery approach | 2021 | S Alagu Lakshmi, RMB Shafreen, A Priya- Structure and, 2021 - Taylor & Francis | CoV-2 main protease ( PDB ID: 5R82. pdb ), spike protein ( PDB ID: 6VYB . pdb ) and human In order to minimize the energy, PDB structures of the target proteins were refined through for combating COVID-19 infection by hampering the viral replication: using structure -based drug |
| 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 | 3qh4 | - | https://www.biorxiv.org/content/10.1101/2021.02.23.432567v1.abstract | Structure guided engineering of a cold active esterase expands substrate range though a stabilisation mutation that allows access to a buried water chamber | 2021 | N Noby, R Johnson, J Tyzack, A Embaby, H Saeed- bioRxiv, 2021 - biorxiv.org | to fully open the HerE plug. LipW ( PDB 3QH4 ) (26) has two shorter residues in place PestE ( PDB 2YH2) (28) does not have the plug (Figure 2b). N211 is replaced by a of helical character than the WT suggesting a higher degree of structure for the mutant at this temperature |
| 6 | 6vyb | - | https://www.mdpi.com/1034566 | Metal-Bound Methisazone; Novel Drugs Targeting Prophylaxis and Treatment of SARS-CoV-2, a Molecular Docking Study | 2021 | A Abdelaal Ahmed Mahmoud M Alkhatip- International Journal of, 2021 - mdpi.com | SARS-CoV-2 currently lacks effective first-line drug treatment. We present promising data from in silico docking studies of new Methisazone compounds (modified with calcium, Ca; iron, Fe; magnesium, Mg; manganese, Mn; or zinc, Zn) designed to bind more strongly to key proteins ... We found that the highest binding interactions were found with the spike protein (6VYB), with the highest overall binding being observed with Mn-bound Methisazone at −8.3 kcal/mol, |
| 7 | 5udf | - | https://pubs.acs.org/doi/abs/10.1021/acs.chemrev.1c00055 | Structure, Assembly, and Function of Tripartite Efflux and Type 1 Secretion Systems in Gram-Negative Bacteria | 2021 | I Alav, J Kobylka, MS Kuth, KM Pos, M Picard- Chemical, 2021 - ACS Publications | Journal Logo. Structure , Assembly, and Function of Tripartite Efflux and Type 1 Secretion Systems in Gram-Negative Bacteria. Ilyas Alav Ilyas Alav. Institute of Microbiology and Infection, College of Medical and Dental Sciences |
| 8 | 6wgy | 3hwk | https://www.sciencedirect.com/science/article/pii/S0141813021009077 | Structural basis of the cooperative activation of type II citrate synthase (HyCS) from Hymenobacter sp. PAMC 26554 | 2021 | SH Park, CW Lee, DW Bae, H Do, CS Jeong- International Journal of, 2021 - Elsevier | of citrate-bound HyCS (closed conformation) and apo-EcCS (open conformation, PDB code: 4G6B residues showed a face-to-edge interaction in the open state structure of EcCS citrate binding-induced conformational changes result in the transfer of further structural changes to ... Mycobacterium tuberculosis (PDB code 3HWK), has a Lys residue at the position corresponding to Trp262 of HyCS but that from the Mycobacterium tuberculosis variant bovis AF2122/97 (PDB code 6WGY) contains a Ser residue instead |
| 9 | 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. |
| 10 | 5bq2 | - | https://www.sciencedirect.com/science/article/pii/S0223523421004177 | The Mur Enzymes Chink in the Armour of Mycobacterium tuberculosis Cell Wall | 2021 | Y Shinde, I Ahmad, S Surana, H Patel- European Journal of Medicinal, 2021 - Elsevier | Mtb Mur ligases with the same catalytic mechanism share conserved amino acid regions and structural features that can conceivably exploit for the designing of the inhibitors, which can simultaneously target more than one isoforms (MurC-MurF) of the enzyme ... According to sequence homol- ogy search using BLASTp against PBD, 06 proteins structure tem- plates (PDB ID 3SG1, 5BQ2, 3ISS, 1A2N, 1UAE, and 3R38) were picked based on sequence identity and more statistical significance, |