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 |
|---|---|---|
| 4GIE | 2012 | 13 |
| 3FDZ | 2009 | 12 |
| 3F9I | 2008 | 12 |
| 4ODJ | 2014 | 12 |
| 4G5D | 2012 | 12 |
| 3H81 | 2009 | 12 |
| 3KHW | 2010 | 12 |
| 7M53 | 2021 | 12 |
| 4WI1 | 2016 | 12 |
| 3SBX | 2011 | 12 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 4lgv | - | http://search.proquest.com/openview/b04b4d65a244a74db03c8611b0eaa999/1?pq-origsi... | Multi-Scale Simulation of Electrostatic Channeling | 2018 | Y Liu - 2018 - search.proquest.com | Figure 2-6 (a) Illustration of the proposed channeling complex using a poly(lysine) bridge as an electrostatic surface between hexokinase (HK; PDB 3VF6) and glucose-6-phosphate dehydrogenase (G6PDH; PDB 4LGV). (b) Experimental reaction scheme used to study electrostatic channeling of the charge intermediate (glucose-6-phosphate) across a cationic peptide bridge. |
| 2 | 6nb7 | 6nb6 | https://arxiv.org/abs/2101.01884 | Exploring the Regulatory Function of the N-terminal Domain of SARS-CoV-2 Spike Protein Through Molecular Dynamics Simulation | 2021 | Y Li, T Wang, J Zhang, B Shao, H Gong- arXiv preprint arXiv, 2021 - arxiv.org | taking the S proteins of SARS-CoV with 2 upward RBDs ( PDB ID: 6NB6) (21) and 3 upward RBDs ( PDB ID: 6NB7 ) (21) as We also conducted a time- structure based Independent Components Analysis (tICA) (34, 35) to identify slow motions with high time autocorrelation on |
| 3 | 3ujh | - | https://www.nature.com/articles/s41598-020-75650-0 | When a foreign gene meets its native counterpart: computational biophysics analysis of two PgiC loci in the grass Festuca ovina | 2020 | Y Li, S Mohanty, D Nilsson, B Hansson, K Mao- Scientific reports, 2020 - nature.com | F. ovina. Using simulated native-state ensembles, we examine the structural properties and binding tightness of the dimers. In addition, we investigate their ability to withstand dissociation when pulled by a force. Our results |
| 4 | 3ujh | - | http://dx.plos.org/10.1371/journal.pone.0125831 | Evidence for Positive Selection within the PgiC1 Locus in the Grass Festuca ovina | 2015 | Y Li, B Canbäck, T Johansson, A Tunlid, HC Prentice - 2015 - dx.plos.org | ... 0.45 Å root-mean-square deviations for the backbone atoms from the template Toxoplasma 3ujh.pdb structure. ... of the candidate sites in the homology-modeled PGIC1 3-D structure, it can ...For comparative purposes, the 3-D protein structural locations of the PGI amino acid sites ... |
| 5 | 5b8i | - | https://journals.asm.org/doi/abs/10.1128/aac.01627-18 | In Vitro and In Vivo Assessment of FK506 Analogs as Novel Antifungal Drug Candidates | 2018 | Y Lee, KT Lee, SJ Lee, JY Beom- Antimicrobial agents, 2018 - Am Soc Microbiol | However, the structure of the fungal ternary complex from Coccidioides immitis has recently been reported ( PDB accession number 5B8I ), which would facilitate the rational design of FK506 analogs that can discriminate human and fungal calcineurins |
| 6 | 3cez | - | http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2958.2009.06680.x/full | Structural and kinetic analysis of an MsrA-MsrB fusion protein from Streptococcus pneumoniae | 2009 | YK Kim, YJ Shin, WH Lee, HY Kim? - Molecular Microbiology, 2009 - Wiley Online Library | ... The Protein Data Bank accession codes for other Msr proteins discussed in this article are as follows: BtMsrA (1FVA), EcMsrA (1FF3), MtMsrA (1NWA), NmMsrA (3BQE, 3BQF, 3BQH), PtMsrA (2J89), BsMsrB (1XM0), BpMsrB (3CEZ, 3CXK) and NgMsrB (1L1D). Kinetic assays. ... |
| 7 | 3p0x | - | http://ira.lib.polyu.edu.hk/handle/10397/35473 | Identification of protein-ligand binding site using machine learning and hybrid pre-processing techniques | 2015 | YKG Wong - 2015 - ira.lib.polyu.edu.hk | ... This type is suit- able if no structural information about the target is available. Another one isstructure- ... All this information can be found from the Protein Data Bank (PDB) [6] or Protein Qua-ternary Structure file server (PQS) [7], which show the atomic coordinates and the qua- ... |
| 8 | 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. |
| 9 | 4q1t | - | https://www.nature.com/articles/ncomms15179 | CRISPR-Cpf1 assisted genome editing of Corynebacterium glutamicum | 2017 | Y Jiang, F Qian, J Yang, Y Liu, F Dong, C Xu- Nature, 2017 - nature.com | ... 5b). Assuming that D154 and N155 of cgProB are part of the active site, 3D protein structure modelling indicated that five amino-acid residues (G149, G153, D154, N155, and D156) participate in a complex hydrogen-bonding network with L-proline (Fig. 5b). ... The three-dimensional structural model of cgProB was generated through homology modelling using the SWISS-MODEL server40,41,42 (https://swissmodel.expasy.org/). The available structure of btProB (PDB code: 4q1t, which shares 38% sequence similar |
| 10 | 4fkx | - | https://www.sciencedirect.com/science/article/pii/S0006291X1930155X | Characterization of crystal structure and key residues of Aspergillus fumigatus nucleoside diphosphate kinase | 2019 | Y Hu, X Jia, Z Lu, L Han- Biochemical and biophysical research, 2019 - Elsevier | was determined by molecular replacement (MR) method using Trypanosoma brucei NDK (TbNDK, PDB code 4FKX ) as starting The PDB accession code was 6AGY 1230-1247. Google Scholar. [9] L. Moynie, MF Giraud, F. Georgescauld, I. Lascu, A. DautantThe structure of the |