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 |
|---|---|---|
| 4JNQ | 2013 | 5 |
| 4J07 | 2013 | 5 |
| 3HWI | 2009 | 5 |
| 4DJT | 2012 | 5 |
| 2LOL | 2012 | 5 |
| 3HJA | 2009 | 5 |
| 3M4S | 2010 | 5 |
| 3M1X | 2010 | 5 |
| 4HWG | 2012 | 5 |
| 3TE8 | 2011 | 5 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 7so9 | - | https://www.nature.com/articles/s41421-023-00535-1 | Comprehensive structural analysis reveals broad-spectrum neutralizing antibodies against SARS-CoV-2 Omicron variants | 2023 | X Chi, L Xia, G Zhang, X Chi, B Huang, Y Zhang- Cell Discovery, 2023 - nature.com | with multiple structures , we selected the subcomplex deposited earliest in the PDB database ID: 7SO9 ) were manually refined based on the focused-refined cryo-EM map. Each residue |
| 2 | 6q05 | - | https://www.sciencedirect.com/science/article/pii/S1093326320305672 | Exploring the intrinsic dynamics of SARS-CoV-2, SARS-CoV and MERS-CoV spike glycoprotein through normal mode analysis using anisotropic network | 2021 | S Majumder, D Chaudhuri, J Datta, K Giri- Journal of Molecular Graphics, 2021 - Elsevier | 2.1. Protein structure retrieval. All the X-ray crystal structures for SARS-CoV-2, SARS-CoV and MERS-CoV S proteins in the lying state were taken from protein data bank [21]. The corresponding PDB IDs are 6VXX, 5X58 and 6Q05 respectively [11,22,23] |
| 3 | 4eo9 | - | https://scripts.iucr.org/cgi-bin/paper?di5015 | Ensembles generated from crystal structures of single distant homologues solve challenging molecular-replacement cases in AMPLE | 2018 | DJ Rigden, JMH Thomas, F Simkovic- Section D: Structural, 2018 - scripts.iucr.org | 1e59) was determined at a very high resolution (1.3 A ) while the other ( PDB entry 4eo9 ) was only at moderate resolution (2.45A). From this set, the structure of ecdysone phosphate phosphatase ( PDB entry 3c7t The third was a set of manually edited crystal structure derivatives |
| 4 | 3gvg | - | http://www.springerlink.com/index/C7W2222G6X226326.pdf | Triosephosphate isomerase: a highly evolved biocatalyst | 2010 | RK Wierenga, EG Kapetaniou, R Venkatesan - Cellular and molecular life Sciences, 2010 - Springer | ... 1AW2 M. marina No SO4 Dimer 2.65 20.0 21.9 3GVG M. tuberculosis No Dimer 1.55 14.5 16.9 1R2R O. cuniculus No Dimer 1.5 16.1 19.0 ... 3967 Page 8. Table 1 continued pdb code Source Mutant Active site ligand Oligomeric state Resolution (A? ) Rcryst (%) Rfree (%) ... |
| 5 | 6wsa | 3ppi, 3oxk, 3kcq, 4w5k, 3sgw, 4rgb, 4ghk | https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0257318 | Principal component analysis of alpha-helix deformations in transmembrane proteins | 2021 | A Bevacqua, S Bakshi, Y Xia- PloS one, 2021 - journals.plos.org | 6tt4, 6txw, 6tzj, 6uqw, 6v47, 6vbj, 6vie, 6vjd, 6vmz, 6vnw, 6w1w, 6w2x, 6wok, 6wsa , 6x1q, 6x2m and the contribution of each physical deformation to the overall flexibility of the secondary structure N -helices of a given length (L residues) were collected from PDB entries (See |
| 6 | 3i0p | - | http://www.sciencedirect.com/science/article/pii/S0022519310001013 | Helix?helix interactions and their impact on protein motifs and assemblies | 2010 | N Kurochkina - Journal of Theoretical Biology, 2010 - Elsevier | ... Protein, Source, PDB designation. Four-?-helix bundle, Myohemerythrin, Thermiste zostericola, 2 mhr. Hemerythrin, Thermiste discrita, 2hmq. ... Aeropyrum pernix, 2d4a. Entamoeba hystolitica,3i0p. Uridine-diphosphate-galactose 4-epimerase, Trypanosoma brucei, 1gy8. ... |
| 7 | 6wps | 6wpt | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7586990/ | Immunological strategies against spike protein: Neutralizing antibodies and vaccine development for COVID19 | 2020 | J Huang, H Huang, D Wang, C Wang- Clinical and, 2020 - ncbi.nlm.nih.gov | Structural data of RBD of SARSCoV2 S protein with CR3022 Fab was retrieved from Protein Databank. (C) Structure of SARSCoV2 S protein with neutralizing antibody S309 Fab fragment ( PDB : 6WPS ) is shown in close state |
| 8 | 3dmo | - | http://www.sciencedirect.com/science/article/pii/S1047847709003463 | Structural and functional analyses of< i> Mycobacterium tuberculosis Rv3315c</i>-encoded metal-dependent homotetrameric cytidine deaminase | 2010 | ZA S?nchez-Quitian, CZ Schneider, RG Ducati? - Journal of structural Biology, 2010 - Elsevier | ... in the PDB (3IJF). Fig. 7A and B show two views of the canonical homotetrameric structure observed for CDAs from S. cerevisiae (1R5T), B. subtilis (1UX1, 1UWZ, 1UX0, 1JTK), Mus musculus (1ZAB, 2FR5, 2FR6), Bacillus anthracis (2D30), Burkholderia pseudomallei (3DMO), ... |
| 9 | 4k73 | - | https://pubs.acs.org/doi/abs/10.1021/acsinfecdis.8b00244 | Structural Basis for the Interaction and Processing of -Lactam Antibiotics by l,d-Transpeptidase 3 (LdtMt3) from Mycobacterium tuberculosis | 2019 | GA Libreros-Ziga, C dos Santos Silva- ACS Infectious, 2019 - ACS Publications | Structural Basis for the Interaction and Processing of -Lactam Antibiotics by l,d-Transpeptidase 3 These structures revealed a fold and catalytic diad similar to those of other Ldts Mt The Ldt Mt3 faropenem structure indicated that faropenem is degraded after Cys-246 acylation The phases were obtained by molecular replacement with Phaser53 from CCP4 suite,54 adopting the PDB entries 4K73 and 5DU727 as models for LdtMt3 and LdtMt5 structures, respectively |
| 10 | 3m1x | - | http://www.sciencedirect.com/science/article/pii/S1046202315002078 | Protein structure prediction guided by crosslinking restraints–A systematic evaluation of the impact of the crosslinking spacer length | 2015 | T Hofmann, AW Fischer, J Meiler, S Kalkhof - Methods, 2015 - Elsevier | ... Based on the structure of calmodulin (PDB entry 2ksz) the average Cβ–Nz, Cβ–Cγ, Cβ–Cδ,Cβ–N H2 , and Cβ–S G distances ... Structure, Uniprot, Resolution [Å], Molecular weight [Da],Sequence length [aa], Lys portion [%], α-helix [%], β-sheet ... 3m1x, C4LXT9, 1.2, 15882, 138, 7, ... |