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 |
|---|---|---|
| 7TY0 | 2022 | 0 |
| 7TXZ | 2022 | 0 |
| # | 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 | 3tde | 3rv2, 3s82, 3iml | https://uknowledge.uky.edu/pharmacy_etds/106/ | Toward an Enzyme-coupled, Bioorthogonal Platform for Methyltransferases: Probing the Specificity of Methionine Adenosyltransferases | 2019 | TD Huber - 2019 - uknowledge.uky.edu | 4.4.5 Protein crystallization, data collection, and structure refinement ..... 105 reported similar promiscuity for the archael Sulfolobus solfataricus MAT (sMAT) and, notably, the corresponding first structural elucidation for a thermostable MAT (sMAT, PDB ID 4HPV) |
| 3 | 3lg6 | - | http://www.sciencedirect.com/science/article/pii/S0006291X11009399 | Identification and clarification of the role of key active site residues in bacterial glutathione< i> S</i>-transferase zeta/maleylpyruvate isomerase | 2011 | T Fang, DF Li, NY Zhou - Biochemical and Biophysical Research Communications, 2011 - Elsevier | ... 2. Phylogenetic relationships of NagL (PDB ID, 2JL4) and other representative cGSTs from the protein data bank. ... delta (1V2A, 1R5A, 3F6F, 3EIN, 1PN9, 1JLV, 3F63 and lJLW), omega (1EEM), tau (2VO4, 1OYJ and 1GWC) and zeta (1FW1, 1E6B, 2JL4, 3NIV, 3LG6 and 2CZ2). ... |
| 4 | 5vwm | - | https://www.sciencedirect.com/science/article/pii/S0968089620306568 | N-Hydroxyformamide LpxC inhibitors, their in vivo efficacy in a mouse Escherichia coli infection model, and their safety in a rat hemodynamic assay | 2020 | T Furuya, AB Shapiro, J Comita-Prevoir- Bioorganic & Medicinal, 2020 - Elsevier | Fig. 2. Key interactions in the LpxC enzyme binding pocket observed in P. aeruginosa LpxCCHIR-090 (3) co-crystal structure ( PDB code: 5VWM ). We first implemented a docking model using the ICM-Pro software (Molsoft) based on the available co-crystal structures of P |
| 5 | 3eiy | - | https://arxiv.org/abs/2012.05716 | Utilising Graph Machine Learning within Drug Discovery and Development | 2020 | T Gaudelet, B Day, AR Jamasb, J Soman- arXiv preprint arXiv, 2020 - arxiv.org | and evolve along a temporal dimension resulting in changes to composition, structure and attributes One such approach is to use a graph's structural information to regularise embeddings authors suggest the atten- tion mechanism is decoupled from the architecture and should |
| 6 | 3eiy | - | https://academic.oup.com/bib/article-abstract/22/6/bbab159/6278145 | Utilizing graph machine learning within drug discovery and development | 2021 | T Gaudelet, B Day, AR Jamasb, J Soman- Briefings in, 2021 - academic.oup.com | structural relationships between their amino acid residues [19, 20] and small molecule drugs as graphs relating their constituent atoms and chemical bonding structure [ data structures . Figure 7. Illustration of (A) a protein (PDB accession: 3EIY) and (B) its graph representation derived based on intramolecular distance with cut-off threshold set at 10Å. |
| 7 | 3sth | - | http://dalspace.library.dal.ca/handle/10222/73554 | Molecular Adaptations in Extremely Halophilic Protists | 2018 | T Harding - 2018 - dalspace.library.dal.ca | proteins compared to the templates used to model the tertiary structures , as a of proteins and alteration of transcriptional programs, leading to modification of cell structure properties like open reading-frame OTU operational taxonomic unit P2XR P2X receptor PDB Protein Data |
| 8 | 3meq | - | https://www.frontiersin.org/articles/10.3389/fmicb.2017.00944 | Adaptations to high salt in a halophilic protist: differential expression and gene acquisitions through duplications and gene transfers | 2017 | T Harding, AJ Roger, AGB Simpson- Frontiers in microbiology, 2017 - frontiersin.org | WP_041596283.1), and sequences for characterized NADPH-dependent enzymes from S. cerevisiae (1Q1N), P. perezi (1P0C), Helicobacter pylori (3TWO), Populus tremuloides (1YQD) and Catharanthus roseus (5H81), and for NADH-dependent enzymes from Moraxella sp. (4Z6K), Geobacillus stearothermophilus (3PII), Ralstonia eutropha (3S1L), Brucella suis (3MEQ), and Pseudomonas aeruginosa (1LLU). (B) Maximum-likelihood phylogenetic tree for zinc-dependent alcohol dehydrogenase showing strongly supported clustering (gray |
| 9 | 4ylg | - | http://www.nature.com/nature/journal/vaop/ncurrent/full/nature16940.html | Cryo-EM structure of the yeast U4/U6. U5 tri-snRNP at 3.7 resolution | 2016 | THD Nguyen, WP Galej, X Bai, C Oubridge - Nature, 2016 - nature.com | ... 4: Secondary structure of the snRNAs in tri-snRNP. ... S. pombe ILS spliceosomal complex 19, 20(red, PDB 3JB9), was overlaid on GDPs found in other guanine-nucleotide binding proteins(grey, PDB coordinates: 1DAR, 2E1R, 2WRI, 1Z0I, 5CA8, 1XTQ, 4YLG, 1SF8, 5BXQ ... |
| 10 | 4l82 | - | http://www.sciencedirect.com/science/article/pii/S1570963917302121 | N-terminus determines activity and specificity of styrene monooxygenase reductases | 2017 | T Heine, A Scholtissek, AH Westphal- et Biophysica Acta (BBA, 2017 - Elsevier | ... Here, PheA2 ( PDB ID: 1RZ1), HpaC (2D36), CobR (4IRA) and a putative oxidoreductase from Rickettsia felis ( 4L82 ) served as the structural templates [5,4547] and an iterative approach was used with Modeller Software 9.14 [48] to compute a RoStyBart model- structure . 2.4. ... |