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 |
|---|---|---|
| 3OKS | 2010 | 4 |
| 6BLJ | 2017 | 4 |
| 3U0I | 2011 | 4 |
| 4ECP | 2012 | 4 |
| 4F4F | 2012 | 4 |
| 7M5E | 2021 | 4 |
| 3UPT | 2011 | 4 |
| 4XK1 | 2015 | 4 |
| 3UJH | 2011 | 4 |
| 3NGJ | 2010 | 4 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 6nb6 | - | https://www.biorxiv.org/content/10.1101/2020.04.03.024885v1.abstract | Rapid in silico design of antibodies targeting SARS-CoV-2 using machine learning and supercomputing | 2020 | T Desautels, A Zemla, E Lau, M Franco, D Faissol- BioRxiv, 2020 - biorxiv.org | In the absence of a known SARS-CoV-2 spike protein structure , we characterized the SARS-CoV- 2 surface glycoprotein sequence YP_009724390.1 [13 The structures of the spike proteins from SARS-CoV-1 (Protein Data Bank ( PDB ) entries: 5x58 [15], 6nb6 [10], 2dd8 [11 |
| 2 | 3dmp | 3qbp, 3e5b, 3hm0 | https://www.sciencedirect.com/science/article/pii/S1570963920301515 | Tetramer protein complex interface residue pairs prediction with LSTM combined with graph representations | 2020 | D Sun, X Gong- Biochimica et Biophysica Acta (BBA)-Proteins and, 2020 - Elsevier | The structure diagram of LSTM neural network is shown in Fig. 3. (See Fig. 1, Fig Table 1. Dataset. DataSet, PDB ID 2H8N, 2JBR, 2NQO, 2Y32, 3DFQ, 3ESI, 3G7K, 3HM0, 3OHP, 3RD4, 3 V15, 1IZ1, 1JL2. 1KAM, 1NSW, 2GJD, 2R90, 2ZYZ, 3CDK, 3CO2, 3DMP , 3F6Z, 1BV4, 1YIF |
| 3 | 3gmt | - | http://onlinelibrary.wiley.com/doi/10.1002/prot.22995/full | Identification of functional motions in the adenylate kinase (ADK) protein family by computational hybrid approaches | 2011 | D Armenta-Medina, E P?rez-Rueda? - Proteins: Structure, Function, and Bioinformatics, 2011 - Wiley Online Library | ... PDB ID, Organism, Resolution ?, Chain, %ID. 4ake, Escherichia coli, 2.20, A, 100. 3be4, Cryptosporidium parvum, 1.60, A, 45. 3fb4, Marinibacillus marinus, 2.00, A, 49. 3gmt, Burkholderia pseudomallei, 2.10, B, 66. 2c9y, Homo sapiens, 2.10, A, 49. 1ak2, Bos taurus, 1.92, A, 48. ... |
| 4 | 4g6c | 3laa | https://aip.scitation.org/doi/abs/10.1063/1.5048469 | Blind prediction of protein B-factor and flexibility | 2018 | D Bramer, GW Wei- The Journal of chemical physics, 2018 - aip.scitation.org | MENU. SIGN IN. Sign in/Register. Enter words / phrases / DOI / ISBN / authors / keywords / etc. SEARCH; CITATION SEARCH; ADVANCED SEARCH. Search in: This Publication. search. Advanced |
| 5 | 3jvh | 3u04, 3ke1, 3k14, 3ikf | http://pubs.acs.org/doi/abs/10.1021/ci5004152 | Toward On-The-Fly Quantum Mechanical/Molecular Mechanical (QM/MM) Docking: Development and Benchmark of a Scoring Function | 2014 | P Chaskar, V Zoete, UF Röhrig - Journal of chemical information …, 2014 - ACS Publications | ... Quality of the structure: resolution <2.5 Å, DPI <0.5 Å, ligand without missing atoms and ... of theligands, we extracted the respective coordinates from the Protein Databank (PDB) file, added ...Protonation states were determined based on pK a values and structural data for some ... |
| 6 | 4xk1 | - | https://www.sciencedirect.com/science/article/pii/S014181301930755X | N-terminal residues are crucial for quaternary structure and active site conformation for the phosphoserine aminotransferase from enteric human parasite E. histolytica | 2019 | RK Singh, P Tomar, S Dharawat, S Kumar- International journal of, 2019 - Elsevier | 3. Comparative analysis, using the RAPIDO server, of PSAT structures from various organisms with the EhPSAT structure . PDB IDs, Sequence identity (%), RMSD with EhPSAT monomer in (number of residues compared) 4XK1 (P. aeruginosa) [38], 40, 1.52 (for 337 residues) |
| 7 | 3l56 | - | https://www.nature.com/articles/s41598-017-11625-y | Characterization of influenza A viruses with polymorphism in PB2 residues 701 and 702 | 2017 | AWH Chin, NKC Leong, JM Nicholls, LLM Poon- Scientific Reports, 2017 - nature.com | Correlation between the structural predictions and the polymerase activities in 293T cells at 37 C. In order to anticipate the effect of PB2-701 and 702 mutations on surface charge distributions, protein models of PB2-701 and 702 mutants ( PDB ID: 3CW4, 3L56 and 2GMO) were |
| 8 | 2lwk | - | https://link.springer.com/chapter/10.1007/7355_2016_20 | Viral RNA targets and their small molecule ligands | 2017 | T Hermann- RNA Therapeutics, 2017 - Springer | disrupt or stabilize the RNA hairpin and thereby affect the equilibrium between translation of structural and enzymatically The three-dimensional structure of the FFS RNA in complex with a synthetic compound has been The added tetraloop is indicated in grey ( PDB : 2LWK ) [34] |
| 9 | 3ftp | 3lls, 3grp | http://www.sciencedirect.com/science/article/pii/S1047847710003497 | Crystal structure of FabG4 from< i> Mycobacterium tuberculosis</i> reveals the importance of C-terminal residues in ketoreductase activity | 2011 | D Dutta, S Bhattacharyya, S Mukherjee, B Saha? - Journal of Structural Biology, 2011 - Elsevier | ... to 356 (loop II), and 395 to 417. Domain II is the catalytic domain and share highest sequence homology with Burkholderia Pseudomallei FabG (PDB: 3FTP, 42% in 248 residues overlap). The active site, deep-seated into the ... |
| 10 | 3h7f | - | http://jxb.oxfordjournals.org/content/62/10/3501.short | In vivo protein tyrosine nitration in Arabidopsis thaliana | 2011 | J Lozano-Juste, R Colom-Moreno? - Journal of experimental botany, 2011 - Soc Experiment Biol | ... protein models were generated by homology modelling at the SWISS-MODEL workspace (Arnold et al., 2006) using the coordinates of GAPDH from rat (PDB code 2VYN), serine hydroxymethyltransferase from Mycobacterium tuberculosis (PDB code 3H7F), transketolase ... |