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 |
|---|---|---|
| 5VO7 | 2017 | 0 |
| 5VPS | 2017 | 0 |
| 8SLH | 2023 | 0 |
| 8SNG | 2023 | 0 |
| 8SNJ | 2023 | 0 |
| 8SOY | 2023 | 0 |
| 8SQO | 2023 | 0 |
| 8SQP | 2023 | 0 |
| 6ANZ | 2017 | 0 |
| 6AP5 | 2017 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 6wps | - | https://www.biorxiv.org/content/10.1101/2021.01.25.427846v1.abstract | SARS-CoV-2 receptor binding mutations and antibody mediated immunity. | 2021 | M Mejdani, K Haddadi, C Pham, R Mahadevan- BioRxiv, 2021 - biorxiv.org | 39 ( PDB : 7JMP), CV07- 250 ( PDB : 6XKQ), P2B-2F6 ( PDB : 7BWJ), CV07-270 ( PDB : 6XKP), BD-368-2 ( PDB : 7CHE), and S309 ( PDB : 6WPS ) 53 Laskowski, RA PDBsum: summaries and analyses of PDB structures Fig.1: Structure of SARS-CoV-2 RBD bound to ACE2 receptor |
| 2 | 7lxy | - | https://www.nature.com/articles/s41467-022-32262-8 | SARS-CoV-2 variants of concern: spike protein mutational analysis and epitope for broad neutralization | 2022 | D Mannar, JW Saville, Z Sun, X Zhu, MM Marti- Nature, 2022 - nature.com | structure , ACE2 affinity, and evasion of antibodies afforded by previously emerged variant spikes, providing a general structural coordinates ( PDB code 7MJG, 7MJM, 7MJN, 7LXY , 7K43 |
| 3 | 4jpd | - | http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0184961 | SAXS and stability studies of iron-induced oligomers of bacterial frataxin CyaY | 2017 | M Fekry, W Alshokry, P Grela, M Tchrzewski- PloS one, 2017 - journals.plos.org | ... The crystal structure of the CyaY monomer ( PDB entry 1EW4) was used for building a model, which was assumed to be a ... The ratio between the emission intensities at 350 nm and 330 nm (F350/F330) was used to track the structural changes with increasing temperature. ... |
| 4 | 4nbr | - | https://academic.oup.com/bioinformatics/advance-article-abstract/doi/10.1093/bio... | SCOT: Rethinking the Classification of Secondary Structure Elements | 2019 | T Brinkjost, C Ehrt, O Koch, P Mutzel- Bioinformatics, 2019 - academic.oup.com | -bulge which leads to a kinked (highlighted in green) -helical structure in 4nbr @ pdb (chain A for SCOT and SHAFT for the structure pair 4k20@ pdb and 5cna@ pdb results from based assignment methods except for SHAFT are the most robust ones regarding structure quality |
| 5 | 5ifz | - | https://academic.oup.com/nar/advance-article-abstract/doi/10.1093/nar/gky1114/51... | SIFTS: updated Structure Integration with Function, Taxonomy and Sequences resource allows 40-fold increase in coverage of structure-based annotations for | 2018 | JM Dana, A Gutmanas, N Tyagi, G Qi- Nucleic acids, 2018 - academic.oup.com | 5.3.1.34 D-erythrulose 4-phosphate isomerase Q9ZB26 99% 5ifz 5.3.1.6 Ribose-5 of the protein sequence space 40-fold, expanding the applicability of structure -based an positions from Ensembl enables a more direct cross-referencing of genomic data from PDB structures |
| 6 | 6c87 | 6byq | https://scripts.iucr.org/cgi-bin/paper?rr5159 | SIMBAD: a sequence-independent molecular-replacement pipeline | 2018 | AJ Simpkin, F Simkovic, JMH Thomas- Section D: Structural, 2018 - scripts.iucr.org | researchers involved. All cases involve the crystallization of a known contaminant. Examples involving the use of SIMBAD for novel structure solution are available elsewhere, such as PDB entries 6byq, 6c87 and 5wol. Cases illustrating |
| 7 | 4hvt | 3s6m, 5tnx | https://pubs.acs.org/doi/abs/10.1021/acs.jcim.8b00777 | SPOT-peptide: Template-based prediction of peptide-binding proteins and peptide-binding sites | 2019 | T Litfin, Y Yang, Y Zhou- Journal of chemical information and, 2019 - ACS Publications | test set taken from another structure -based peptide-binding site predictor, SPRINT- peptide11 Structural genomics targets (SG4444) 11,813 proteins involved in structural genomics studies were collected from the PDB plate primarily based on domain-level structural similarity |
| 8 | 5i0p | - | https://ecommons.cornell.edu/handle/1813/70073 | STRUCTURE AND FUNCTION OF THE PALMITOYLTRANSFERASE DHHC20 AND THE ACYL COA HYDROLASE MBLAC2 | 2019 | MIP Malgapo - 2019 - ecommons.cornell.edu | crystals ..... 43 The overall structure of hDHHC20 and zfDHHC15 is similar to what was predicted for DHHC enzymes .... 44 Two zinc ions serve a structural function in the cysteine-rich domain of DHHC20 ..... 44 |
| 9 | 4lfy | - | https://tspace.library.utoronto.ca/handle/1807/70867 | STRUCTURE DETERMINATION AND BIOCHEMICAL CHARACTERIZATION OF NOVEL HUMAN UBIQUITIN-LIKE DOMAINS. | 2015 | RS Doherty - 2015 - tspace.library.utoronto.ca | ... Table 3.2: Secondary structure elements of NFATc2IP, ubiquilin-1, ubiquitin and SUMO1/2/3. ...Table 3.4: UIM:ubiquitin complexes deposited in the PDB, along with UIM sequence ... ubiquitin,along with the number of supporting publications and supporting structural complexes that ... |
| 10 | 3fdz | - | http://www.google.com/patents?hl=en&lr=&vid=USPATAPP12753638&id=WYjZAAAAEBAJ&oi=... | SYSTEM AND USES FOR GENERATING DATABASES OF PROTEIN SECONDARY STRUCTURES INVOLVED IN INTER-CHAIN PROTEIN INTERACTIONS | 2010 | AL Jochim, PS Arora - US Patent App. 12/753,638, 2010 - Google Patents | ... 4, 2010 Sheet 5 of 7 US 2010/0281003 Al EXTRACT PROTEIN STRUCTURES WITH GREATER THAN TWO ENTITIES FROM PDB PROTEIN DATA BANK ASSIGN SECONDARY STRUCTURE ACCORDING TO (() AND vj/ANGLES OF PROTEIN BACKBONE CALCULATE ... |