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 |
|---|---|---|
| 8DOQ | 2022 | 0 |
| 4W9U | 2014 | 0 |
| 4U83 | 2014 | 0 |
| 8DOP | 2022 | 0 |
| 8DOF | 2022 | 0 |
| 8DIU | 2022 | 0 |
| 8DIS | 2023 | 0 |
| 8DIM | 2022 | 0 |
| 8DGD | 2023 | 0 |
| 4PPW | 2014 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 4hwg | - | https://www.biorxiv.org/content/10.1101/535138v1.abstract | Energy Landscape of the Domain Movement in Staphylococcus aureus UDP-N-acetylglucosamine 2-epimerase | 2019 | C de Azevedo, AS Nascimento- bioRxiv, 2019 - biorxiv.org | chain without ligands PDB ID Organism Ligands Oligomeric state CV Angle Chain A (deg) Rickettsia bellii ( 4HWG ). We hypothesize that the cubic symmetry observed in this crystal (UDP-GlcNac) and cofactor (UDP) are found bound in the crystal structure (1VGV, 3BEO, 4FKZ |
| 2 | 2n6t | 2n6x, 2n6w, 2n6s | https://www.biorxiv.org/content/10.1101/554931v1.abstract | Conditional Prediction of RNA Secondary Structure Using NMR Chemical Shifts | 2019 | K Zhang, AT Frank- bioRxiv, 2019 - biorxiv.org | chemical shifts were downloaded from the Protein Data Bank ( PDB : http://www. pdb .org) and native NMR-derived structure and the comparison structure is the CS-Folding generated structure 2JYM 2L5Z 2LK3 2MIS 2QH2 1Z2J 1JO7 5UZT 2N3Q 5IEM 2L3E 2N6T 2LPS 2N6S |
| 3 | 3quv | - | https://www.biorxiv.org/content/10.1101/564013v2.abstract | Fragment-based discovery of a new class of inhibitors targeting mycobacterial tRNA modification | 2019 | SE Thomas, AJ Whitehouse, K Brown, JM Belardinelli- bioRxiv, 2019 - biorxiv.org | at 1.67 and 1.48 resolution respectively ( PDB codes 6NW6 & 6NW7). The crystals belong 109 region is largely disordered, with residues 162-177 not clearly visible in the apo structure 115 of a deep trefoil knot architecture , made of three distinct untwisted loop regions |
| 4 | 5t8s | - | https://www.biorxiv.org/content/10.1101/622068v2.full.pdf | MCSS-based Predictions of Binding Mode and Selectivity of Nucleotide Ligands | 2020 | R Gonzalez-Aleman, N Chevrollier, M Simoes- bioRxiv, 2020 - biorxiv.org | method based on a coarse-grained model (RNA-LIM) was developed to model the structure of an on the protein-nucleotide complexes currently available in the Protein Data Bank (RCSB PDB (52 less than 2.0 and thus not representative of the currently available structural data |
| 5 | 6b4a | - | https://www.biorxiv.org/content/10.1101/623140v1.abstract | A doublecortin-domain protein of Toxoplasma and its orthologues bind to and modify the structure and organization of tubulin polymers | 2019 | JM Leung, E Nagayasu, YC Hwang, P Pierce, IQ Phan- bioRxiv, 2019 - biorxiv.org | Page 5. 5 more in-depth analysis of the conoid fiber architecture , and a comparison of TgDCX and its eight residues 51-128, rmsd 1.905 ); TgDCX ( 6B4A , chain A, aa150-222) vs DCX domains (Figure 5A, Table 1), we used the structure of TgDCX148-243 as a model for |
| 6 | 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 |
| 7 | 3oj6 | 6cuq, 4o3v | https://www.biorxiv.org/content/10.1101/673897v1.abstract | Combining statistical and neural network approaches to derive energy functions for completely flexible protein backbone design | 2019 | B Huang, Y Xu, H Liu- bioRxiv, 2019 - biorxiv.org | To design a backbone, an intended framework is specified first. This framework defines at a very coarse level the intended backbone architecture , including the numbers For each native structure with the given PDB ID, results of four simulations are plotted in different |
| 8 | 4qtp | - | https://www.biorxiv.org/content/10.1101/674879v1.abstract | SiaABCDA threonine phosphorylation pathway that controls biofilm formation in Pseudomonas aeruginosa | 2019 | WH Poh, J Lin, B Colley, N Mller, BC Goh- BioRxiv, 2019 - biorxiv.org | 7NTU Institute of Structural Biology, Nanyang Technological University, Singapore 18 Biofilms are ubiquitous, multicellular structures embedded in a self-made matrix, that can suspended biofilms greatly influence the development, structure and function of their surface-attached |
| 9 | 4qtp | - | https://www.biorxiv.org/content/10.1101/674879v3.abstract | The SiaABC threonine phosphorylation pathway controls biofilm formation in response to carbon availability in Pseudomonas aeruginosa | 2020 | WH Poh, J Lin, B Colley, N Mller, BC Goh- BioRxiv, 2020 - biorxiv.org | SiaC crystal 319 structure , and an anti-sigma factor antagonist from Mycobacterium paratuberculosis ( PDB ID: 320 4QTP ; gene ID MAP_0380; Fig 6D) was identified as the closest homologue (Z score of 9.0, an 321 amino-acid sequence |
| 10 | 5tw7 | - | https://www.biorxiv.org/content/10.1101/808618v2.full-text | Helices on interdomain interface couple catalysis in the ATPPase domain with allostery in Plasmodium falciparum GMP synthetase | 2020 | S Shivakumaraswamy, N Pandey, L Ballut, S Violot- bioRxiv, 2020 - biorxiv.org | Experimental Procedures. Sequence and structure analysis The PDB IDs of the structures of GMPS analyzed are 1GPM (Escherichia coli), 3TQI (Coxiella burnetii), 2YWB and 2YWC (Thermus thermophilus), 5TW7 (Neisseria gonorrhoeae), 2VXO (Homo sapiens), 3UOW |