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 | 5vpq | - | https://febs.onlinelibrary.wiley.com/doi/abs/10.1111/febs.15854 | Conserved residues Glu37 and Trp229 play an essential role in protein folding of lactamase | 2021 | A Chikunova, MP Manley, M Ud Din Ahmad- The FEBS, 2021 - Wiley Online Library | (2013). Cation- Interactions in -Lactamases: The Role in Structural Stability, Cell Biochem. Biophys. 66, 147155 [49] RP Joosten, F. Long, GN Murshudov & A. Perrakis. (2014). The PDB -REDO server for macromolecular structure model optimization, IUCrJ. 1, 213220 ... Pro226-Trp229-Pro251-Pro252-(Phe287) chain: β-lactamase from Burkholderia phymatum—gold (5VPQ), ... |
| 2 | 3v7o | - | https://www.nature.com/articles/srep23743?WT.feed_name=subjects_genetics | Conserved differences in protein sequence determine the human pathogenicity of Ebolaviruses | 2016 | M Pappalardo, M Juli, MJ Howard, JS Rossman- Scientific reports, 2016 - nature.com | ... of both Ebola virus ( PDB structure 2I8B) and Reston virus ( PDB structure 3V7O ) VP30 are ... Structural data are available for both the Ebola virus and Reston virus VP35 ... These structures are highly conserved, however functional studies have demonstrated that Reston virus VP35 ... |
| 3 | 3tmg | - | http://jb.asm.org/content/199/5/e00746-16.short | Conserved ABC Transport System Regulated by the General Stress Response Pathways of Alpha-and Gammaproteobacteria | 2017 | J Herrou, JW Willett, DM Czy, G Babnigg - Journal of , 2017 - Am Soc Microbiol | ... meliloti ChoX (PDB IDs 2REG and 2RIN) (37, 38) and EhuB (PDB ID 2Q88) (39), E. coli ProX(PDB IDs 1R9L and 1R9Q) (40), and Borrelia burgdorferi ProX (PDB ID 3TMG). ... Residue numberingstarts with the first residue present in the corresponding structure in the PDB. ... |
| 4 | 3ek1 | - | http://inderscience.metapress.com/index/F88667Q47093367J.pdf | Conservation of water molecules in protein binding interfaces | 2012 | Z Li, Y He, L Cao, L Wong, J Li - International Journal of Bioinformatics Research and Applications, 2012 - Inderscience | ... Figure 6 Water-contacting structure of four aligned alanine residues in: a rat formyltetrahydrofolate dehydrogenase subunit interface (a, [PDB:2O2P]), and three betaine aldehyde dehydrogenase subunit interfaces (b[PDB:2WOX], c[PDB:1WNB] and d[PDB:3EK1]). ... |
| 5 | 5idv | - | https://www.sciencedirect.com/science/article/pii/S0969212618301710 | Conformational States of ABC Transporter MsbA in a Lipid Environment Investigated by Small-Angle Scattering Using Stealth Carrier Nanodiscs | 2018 | I Josts, J Nitsche, S Maric, HD Mertens, M Moulin- Structure, 2018 - Elsevier | are slightly apart, rather than in contact, as seen in the closed structure (Figure 3 2005) and a single MsbA monomer (Figure 4). We imposed several structural restraints, assuming an overall confirmation as observed for P-glycoprotein (Szewczyk et al., 2015) ( PDB : 4Q9H) and |
| 6 | 3gmt | - | http://link.springer.com/chapter/10.1007/128_2012_410 | Conformational Heterogeneity Within the LID Domain Mediates Substrate Binding to Escherichia coli Adenylate Kinase: Function Follows Fluctuations | 2013 | TP Schrank, JO Wrabl, VJ Hilser - Dynamics in Enzyme Catalysis: Topics in Current Chemistry, 2013 - Springer | ... PDB structures 1AK2, 1E4V, 2AR7, 2RH5, 2XB4, 3GMT, 3NDP, each pairwise superimposed on 4AKE, the AK(e) structure are displayed. ... All adenylate kinase structures were retrieved from the Protein Data Bank (PDB) [71]. ... |
| 7 | 4g6c | 4gnv | http://onlinelibrary.wiley.com/doi/10.1002/pro.3166/full | Conformational flexibility of the glycosidase NagZ allows it to bind structurally diverse inhibitors to suppress lactam antibiotic resistance | 2017 | G Vadlamani, KA Stubbs, J Dsir, Y Blriot - Protein , 2017 - Wiley Online Library | ... iMosflm,[31] then scaled and averaged using SCALA (CCP4 package).[32] The BcNagZ:inhibitorcomplex structures were determined by molecular replacement using PHASER (from within thePHENIX package)[33] and a structure of BcNagZ (PDB ID: 4G6C) ...The position of the loop is also consistent with a previous structure of BcNagZ bound to the non-selective N-acetyl-β-glucosaminidase inhibitor 3-acetamido-4,5,6-trihydroxyazepane MM-124 (PDB ID: 4MSS)[9] and the product GlcNAc (PDB ID: 4GNV), indicating that ... |
| 8 | 6nb3 | - | https://advances.sciencemag.org/content/7/1/eabe5575.abstract | Conformational dynamics of SARS-CoV-2 trimeric spike glycoprotein in complex with receptor ACE2 revealed by cryo-EM | 2021 | C Xu, Y Wang, C Liu, C Zhang, W Han- Science, 2021 - advances.sciencemag.org | For the FP region, we first built the homology model by the Modeller tool within Chimera by using the MERS-CoV S structure (PDB: 6NB3) as template (2, 58, 59) and then used Rosetta to refine this region against the density map |
| 9 | 3qbp | 3rd8, 3rrp | http://www.sciencedirect.com/science/article/pii/S0014579312003237 | Conformational changes upon ligand binding in the essential class II fumarase Rv1098c from< i> Mycobacterium tuberculosis</i> | 2012 | AE Mechaly, A Haouz, I Miras, N Barilone, P Weber? - FEBS letters, 2012 - Elsevier | ... Overall, Rv1098c shows significant structural similarity to deposited structures of mycobacterial homologs (pdb entries 3RD8, 3RRP and 3QBP, all unpublished; Supplementary Table 1), as well as to other members of this superfamily, including aspartases, ?-crystallins ... |
| 10 | 3gvh | - | https://scripts.iucr.org/cgi-bin/paper?rf5009 | Conformational changes on substrate binding revealed by structures of Methylobacterium extorquens malate dehydrogenase | 2018 | JM Gonzlez, R Marti-Arbona, JCH Chen- Section F: Structural, 2018 - scripts.iucr.org | Data-collection and quality statistics are summarized in Table 3. 2.6. Structure solution and refinement The malate/lactate dehydrogenase from Brucella melitensis ( PDB entry 3gvh ; Seattle Structural Genomics Center for Infectious Disease, unpublished |