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 |
|---|---|---|
| 3MQD | 2010 | 9 |
| 3QBP | 2011 | 9 |
| 4XGI | 2015 | 9 |
| 4QJI | 2014 | 9 |
| 4GRI | 2012 | 9 |
| 4F3Y | 2012 | 9 |
| 3F0D | 2008 | 9 |
| 4G6Z | 2012 | 9 |
| 4F32 | 2012 | 9 |
| 4PCA | 2014 | 9 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 3qh4 | - | https://onlinelibrary.wiley.com/doi/abs/10.1002/ddr.21468 | Microbial esterases and ester prodrugs: An unlikely marriage for combating antibiotic resistance | 2018 | EM Larsen, RJ Johnson- Drug development research, 2018 - Wiley Online Library | Bacterial esterase structure and function The bacterial esterase, LipW from M. tuberculosis ( PDB ID: 3QH4 ) is shown as an example with its sheets in tan, its helices in purple, and its catalytic triad in sticks and labeled |
| 2 | 3nwo | - | https://link.springer.com/article/10.1007/s11010-021-04121-5 | The rise and fall of anandamide: processes that control synthesis, degradation, and storage | 2021 | RG Biringer- Molecular and Cellular Biochemistry, 2021 - Springer | This manuscript discusses the key enzymes in AEA homeostasis, in terms of structure , reaction specificity, enzymatic activity, regulation, and tissue and cellular expression patterns with a focus on the human isoforms involved. ... No X-ray structures or posttranslational modifications have been reported. There are two potential structural model templates suggested on the SWISS-MODEL website [14], template 3nwo.1.A and template 5mxp.1.B. hABHD4 is produced |
| 3 | 7sh3 | - | https://www.nature.com/articles/s42004-023-01029-7 | Peptide binder design with inverse folding and protein structure prediction | 2023 | P Bryant, A Elofsson- Communications Chemistry, 2023 - nature.com | ProteinMPNN was trained on assemblies in the PDB these to unique PDB IDS, one finds 4086 PDB IDS in total. from all PDB IDs and extracted interacting pairs (one per PDB ID) based ... To see if the modification of the AF protocol described here can distinguish these binders, we analyse sequences tested against four different receptor proteins with solved receptor-binder structures ... IL7Ra: https://www.rcsb.org/structure/7OPB and VirB8:https://www.rcsb.org/structure/7SH3). |
| 4 | 3sbx | - | https://www.sciencedirect.com/science/article/pii/S1097276519302606 | (p) ppGpp Regulates a Bacterial Nucleosidase by an Allosteric Two-Domain Switch | 2019 | YE Zhang, RL Brentsen, T Fuhrer, U Sauer, K Gerdes- Molecular cell, 2019 - Elsevier | marinum showing similarity to the PpnN core domain and determined in the presence of adenosine monophosphate (AMP) ( PDB : 3SBX , Figure S3 Vibrio cholerae and Idomarina baltica, at a similar position to the phosphate of AMP in the M. marinum structure , suggesting that |
| 5 | 3enk | - | https://www.nature.com/articles/s41598-019-47591-w | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum | 2019 | YW Nam, M Nishimoto, T Arakawa, M Kitaoka- Scientific reports, 2019 - nature.com | Here, we focused on structural features of GalE from B. longum JCM1217 (bGalE) The main chain structure of bGalE is similar to those of bacterial and eukaryotic GalEs. C RMSD values (distance cutoff = 2.0 ) of the UDP-GlcNAc complex with hGalE ( PDB ID 1HZJ, ... We built a reliable homology model of BLLJ_1592 (GQME = 0.72 and QMEAN = −2.34) using the SWISS-MODEL server45 with an unpublished structure of GalE from Burkholderia pseudomallei (PDB ID: 3ENK, sequence identity = 42.3%) as a template |
| 6 | 4k9d | - | https://www.sciencedirect.com/science/article/pii/S0141113618301211 | The glyceraldehyde-3-phosphate dehydrogenase of the shrimp Litopenaeus vannamei: Molecular cloning, characterization and expression during hypoxia | 2018 | L Camacho-Jimnez, AB Peregrino-Uriarte- Marine Environmental, 2018 - Elsevier | We also made a structural analysis in silico of the deduced protein from a comparative the GAPDH holoenzyme from P. versicolor solved by X-ray diffraction (2 ) ( PDB : 1SZJ, chain Finally, the LvGAPDH multimeric complex model was obtained from the former structure with the |
| 7 | 3hhe | - | http://jb.asm.org/content/195/9/2101.short | A genomic signature and the identification of new sporulation genes | 2013 | AB Abecasis, M Serrano, R Alves, L Quintais… - Journal of Bacteriology, 2013 - Am Soc Microbiol | Supplemental Material: B: structure based alignment between the YlzA protein and a putative ribose-5-phosphate isomerase from Bartonella henselae (pdb code 3HHE). Note that that the first 20 residues of YlzA do not align with the B. henselae protein. |
| 8 | 5upg | - | https://pubs.acs.org/doi/abs/10.1021/acs.jmedchem.0c01215 | Fragment-Based Discovery of Novel Non-Hydroxamate LpxC Inhibitors with Antibacterial Activity | 2020 | Y Yamada, H Takashima, DL Walmsley- Journal of Medicinal, 2020 - ACS Publications | UDP-3-O-acyl-N-acetylglucosamine deacetylase (LpxC) is a zinc metalloenzyme that catalyzes the first committed step in the biosynthesis of Lipid A, an essential component of the cell envelope of Gr... Figure 3. Detail of the crystal structure (PDB code: 5UPG) of 1 (PF-5081090) binding to the active site of PaLpxC |
| 9 | 6uk3 | 5v96, 6aph, 3d64, 3n58, 3glq | https://www.mdpi.com/2218-273X/10/12/1682 | S-adenosyl-l-homocysteine Hydrolase: A Structural Perspective on the Enzyme with Two Rossmann-Fold Domains | 2020 | K Brzezinski- Biomolecules, 2020 - mdpi.com | major [3G1U, unpublished], Cryptosporidium parvum [5HM8 unpublished], Acanthamoeba castellanii [ 6UK3 , unpublished], Naegleria Crystal structures of SAHases were acquired from PDB cofactor-binding domains was performed based on secondary structure assignments in |
| 10 | 4q4l | - | https://www.sciencedirect.com/science/article/pii/S0022283618302353 | Integrating cross-linking experiments with ab initio protein-protein docking | 2018 | T Vreven, DK Schweppe, JD Chavez, CR Weisbrod- J Mol Biol. 2018 Jun 8;430(12):1814-1828. | For the resulting complex list, we then searched the PDB for unbound structures A method for integrative structure determination of protein-protein complexes 2636. [13] Pons C, D'Abramo M, Svergun DI, Orozco M, Bernad P, Fernandez-Recio J. Structural characterization of |