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 |
|---|---|---|
| 6MJK | 2018 | 0 |
| 6N0W | 2018 | 0 |
| 6N1M | 2018 | 0 |
| 6NB0 | 2018 | 0 |
| 6NB2 | 2019 | 0 |
| 6NBM | 2019 | 0 |
| 6NDR | 2018 | 0 |
| 6NHI | 2019 | 0 |
| 6NRZ | 2019 | 0 |
| 6NUP | 2019 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 3qhx | - | https://www.biorxiv.org/content/10.1101/651067v1.abstract | SolXplain: An Explainable Sequence-Based Protein Solubility Predictor | 2019 | R Mall- bioRxiv, 2019 - biorxiv.org | be used as a scoring function to measure the quality of a tree structure Ht at in [13], devise a fast, greedy and iterative algorithm to identify these optimal tree structures We train our XGBoost classifier on top of physio-chemical (global), sequence and structural features extracted |
| 2 | 3gvg | 4g1k | http://repositorio.unesp.br/handle/11449/138506 | Production, characterization and structural analysis of proteins from Corynebacterium pseudotuberculosis and snake venoms | 2015 | R Masood - 2015 - repositorio.unesp.br | ... Structural alignment among different TIMs (3TA6, 3GVG, 1YYA, 1B9B, 4G1K and 2BTM) indicate that they are very similar to each other (Fig. 19). Alignment of C. pseudotuberculosis TIM with TIM (PDB code 3TA6) from Mycobacterium tuberculosis shows a very slight difference in the loop region as shown in the figure 19 A as they share 67% sequence identity and 0.4 RMSD value. . ... |
| 3 | 4noz | 4mh4 | https://pubs.acs.org/doi/abs/10.1021/acscatal.0c01257 | Substrate and product-assisted catalysis: molecular aspects behind structural switches along Organic Hydroperoxide Resistance Protein catalytic cycle | 2020 | R Mateus Domingos, RD Teixeira, A Zeida- ACS, 2020 - ACS Publications | The Ohr active site architecture is composed of two cysteines structures (Figure S1). Notably, when analyzing the other Ohr structures available in the PDB , we observed that the position of the Arg-loop in the Bacillus subtilis OhrB (BsOhrB) structure presents an intermediate |
| 4 | 3r8c | 3r20, 4die | https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0233689 | The crystal structures of Thermus thermophilus CMP kinase complexed with a phosphoryl group acceptor and donor | 2020 | R Mega, N Nakagawa, S Kuramitsu, R Masui- PloS one, 2020 - journals.plos.org | open form, CMP-bound closed form, ADP-CDP-Gd 3+ -, and CDP-bound forms at resolutions of 1.7, 2.2, 1.5, 1.6, and 1.7 , respectively (Table 1, Fig 1). Structural differences between (B) Superimposition of the overall structure of ligand-free form (gray; PDB code 3W90 ... and ligand-free form of CMPK from M. abscessus (dark gray; 3R8C). These structures were structurally aligned ... The ligand-free form of M. smegmatis CMPK (PDB code 3R20) is almost the same structure as M. abscessus CMPK. |
| 5 | 3hja | - | http://scripts.iucr.org/cgi-bin/paper?us5057 | Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of glyceraldehyde-3-phosphate dehydrogenase from Streptococcus | 2014 | R Nagarajan, K Ponnuraj - Acta Crystallographica Section F: , 2014 - scripts.iucr.org | ... 246, 511-521.] ), Borrelia burgdorferi (PDB entry 3hja ; Seattle Structural Genomics Center for Infectious Disease, unpublished work) and E. coli (PDB entry 1s7c ; Berkeley Structural Genomics Center, unpublished work) and fungal species as Saccharomyces cerevisiae (PDB ... |
| 6 | 5vmt | 3hja | https://www.sciencedirect.com/science/article/pii/S0882401018316140 | Crystal structure of GAPDH of Streptococcus agalactiae and characterization of its interaction with extracellular matrix molecules | 2018 | R Nagarajan, S Sankar, K Ponnuraj- Microbial pathogenesis, 2018 - Elsevier | S1). The protein BLAST against Protein Data Bank ( PDB ) led to 97 hits with recently determined 71% and 69% sequence identity with S. pneumoniae (5M6D), Nessiera gonorrhea ( 5VMT ) and S to mixed-holo structure (highest resolution of 1.36 ), the present structure (Apo, 2.6 |
| 7 | 3gmt | - | https://spiral.imperial.ac.uk/handle/10044/1/68684 | Exploring protein dynamics using graph theory and single-molecule spectroscopy | 2017 | R Peach - 2017 - spiral.imperial.ac.uk | 4.1 Weighted graph construction from an experimental PDB structure The increased understanding between structure , dynamics and function offers opportunities for protein ... Despite the myriad of structures, only four are available in the apo state (PDB ID: 4AKE, 2RH5, 3UMF and 3GMT) which takes the form of the open conformation. |
| 8 | 6vyb | 6vxx | https://link.springer.com/article/10.1007/s40495-021-00259-4 | Phytocompounds of Rheum emodi, Thymus serpyllum, and Artemisia annua Inhibit Spike Protein of SARS-CoV-2 Binding to ACE2 Receptor: In Silico | 2021 | R Rolta, D Salaria, PP Sharma, B Sharma- Current pharmacology, 2021 - Springer | -CoV-2 spike ectodomain structure ( 6VYB , open state) with a ( PDB ID: 6VXX, and 6VYB ) have 6Na + ions to neutralize complexes. The artemisinin complexes with 6VXX and 6VYB |
| 9 | 3p10 | - | http://www.sciencedirect.com/science/article/pii/S1047847712001608 | Identification and structural characterization of two 14-3-3 binding sites in the human peptidylarginine deiminase type VI | 2012 | R Rose, M Rose, C Ottmann - Journal of Structural Biology, 2012 - Elsevier | ... of structures ( [Schumacher et al., 2010a], [Schumacher et al., 2010b] and [Molzan et al., 2010]) (PDB IDs: 3NKX, 3O8I, 3IQV, 3LW1, 3IQU, 3IQJ, 3P10, 3P1Q, 3P1N, 3P1R, 3P1S, 3MHR), and which only yields crystals when a peptide is bound in the binding groove of 14-3-3 ?. ... |
| 10 | 6mg6 | - | https://www.researchsquare.com/article/rs-561386/latest.pdf | Genome Mining, Phylogenetic and Structural Analysis of Bacterial Nitrilases for the Biodegradation of Nitrile Compounds | 2021 | R Salwan, V Sharma, S Das - 2021 - researchsquare.com | ( PDB :1EMS), Helicobacter pylori ( PDB : 6MG6 ), Mus musculus ( PDB : 2W1V), Pyrococcus abyssi ( PDB : 3WUY) has already been reported. However, with most of the nitrilases, the crystal structure had been resolved, came |