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.
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 5vnx | 5jay | https://www.nature.com/articles/s41598-018-32905-1 | Riemerella anatipestifer AS87_RS09170 gene is responsible for biotin synthesis, bacterial morphology and virulence | 2018 | X Ren, X Wang, H Shi, X Zhang, Z Chen, KK Malhi- Scientific reports, 2018 - nature.com | 1DJE [30.2% identity]), Burkholderia multivorans ( PDB accession no. 5VNX [28.6% identity]) and Mycobacterium smegmatis ( PDB accession no. 3WY7 [29.9% identity]) 6). WT Yb2 cells were integral with clear structures , and few were undergoing division |
| 2 | 6bfu | - | https://www.nature.com/articles/s41598-018-34171-7 | Stabilized coronavirus spikes are resistant to conformational changes induced by receptor recognition or proteolysis | 2018 | RN Kirchdoerfer, N Wang, J Pallesen, D Wrapp- Scientific reports, 2018 - nature.com | Structural description of SARS-CoV S 2P ectodomain Structure of the SARS-CoV S 2P ectotodomain fusion peptide 24 adopts a conformation distinct from equivalent regions in (b) alpha- (HuCoV-NL63, 5SZS. pdb 20 ) and (c) deltacoronavirus spikes (PDCV S, 6BFU . pdb 21 ) as |
| 3 | 5cy4 | - | https://www.nature.com/articles/s41598-019-39641-0 | Structural basis of small RNA hydrolysis by oligoribonuclease (Cps ORN) from Colwellia psychrerythraea strain 34H | 2019 | CW Lee, SH Park, CS Jeong, SS Cha, H Park- Scientific reports, 2019 - nature.com | Structure alignment search using DALI server showed that CpsORN exhibited high structural similarity with ORN HinORN; PDB code 1J9A), and Acinetobacter baumannii (AbaORN; PDB code 5CY4 ), and XC847 from Xanthomonas campestris (XcaORN; PDB code 2GBZ |
| 4 | 3enk | - | https://www.nature.com/articles/s41598-019-47591-w | Structural basis for broad substrate specificity of UDP-glucose 4-epimerase in the human milk oligosaccharide catabolic pathway of Bifidobacterium longum | 2019 | YW Nam, M Nishimoto, T Arakawa, M Kitaoka- Scientific reports, 2019 - nature.com | Here, we focused on structural features of GalE from B. longum JCM1217 (bGalE) The main chain structure of bGalE is similar to those of bacterial and eukaryotic GalEs. C RMSD values (distance cutoff = 2.0 ) of the UDP-GlcNAc complex with hGalE ( PDB ID 1HZJ, ... We built a reliable homology model of BLLJ_1592 (GQME = 0.72 and QMEAN = −2.34) using the SWISS-MODEL server45 with an unpublished structure of GalE from Burkholderia pseudomallei (PDB ID: 3ENK, sequence identity = 42.3%) as a template |
| 5 | 3ix6 | - | https://www.nature.com/articles/s41598-019-48940-5 | Analysis of mutations leading to para-aminosalicylic acid resistance in Mycobacterium tuberculosis | 2019 | B Pandey, S Grover, J Kaur, A Grover- Scientific reports, 2019 - nature.com | crystal structures of the ThyA enzyme in Brucella melitensis (PDBID: 3IX6 ), M. tuberculosis 3QJ7) 20 , Enterococcus faecalis ( PDB IF: 6QYA), and Escherichia coli ( PDB ID: 1AXW Comparative analysis of the binding free energy, secondary structure elements, and free energy |
| 6 | 3hzu | 3hwi | https://www.nature.com/articles/s41598-019-53069-6 | Mycobacterium tuberculosis CysA2 is a dual sulfurtransferase with activity against thiosulfate and 3-mercaptopyruvate and interacts with mammalian cells | 2019 | AN Meza, CCN Cambui, ACR Moreno, MR Fessel- Scientific reports, 2019 - nature.com | dimensional structures of M. tuberculosis CysA2 ( PDB code 3HIW, yellow), CysA3 ( PDB code 3AAY, red) and SseA ( PDB code 3HZU , blue) Based on the available three-dimensional structure of CysA2, we performed a comparison with putative orthologues studied in the |
| 7 | 3sbx | - | https://www.nature.com/articles/s41598-019-53171-9 | A LONELY GUY protein of Bordetella pertussis with unique features is related to oxidative stress | 2019 | F Moramarco, A Pezzicoli, L Salvini, R Leuzzi- Scientific reports, 2019 - nature.com | first resorted to a theoretical approach. This involved overlapping a model of BP1253 with a monomer of the type-I LOG protein of M. marinum co-crystallized with AMP (MmLOG, PDB 3SBX ) 14,19 . BP1253 was modeled on a |
| 8 | 5eqz | - | https://www.nature.com/articles/s41598-019-53830-x | Membrane directed expression in Escherichia coli of BBA57 and other virulence factors from the Lyme disease agent Borrelia burgdorferi | 2019 | KE Robertson, CD Truong, FM Craciunescu, PL Chiu- Scientific reports, 2019 - nature.com | All available structures from the genus Borrelia represent proteins expressed without a membrane Towards elucidating structure and function of these critical proteins, we directed translocation of to the outer membrane, Another criterion was the lack of structures in the PDB. RevA has a structure in the PDB33, a 1.80 Å crystal structure (accession no. 5EQZ, unpublished [J.K. Yano, A.H. Sullivan, J. Abendroth, D.D. Lorimer, and T.E. Edwards]), which is of the soluble domain that was expressed in the c |
| 9 | 6wps | - | https://www.nature.com/articles/s41598-020-71748-7 | Analysis of the SARS-CoV-2 spike protein glycan shield reveals implications for immune recognition | 2020 | OC Grant, D Montgomery, K Ito, RJ Woods- Scientific reports, 2020 - nature.com | The 3D structures show that the protein surface is extensively shielded from antibody recognition by glycans, with the notable exception of the ACE2 receptor Here we examine the structure of the SARS-CoV-2 envelope spike (S) protein that mediates host cell infection, with a. ... However, a closer examination also indicates a contraction between the 3D glycoform model and the observed binding of the neutralizing antibody S309 (PDB ID 6WPS). |
| 10 | 3qi6 | 6cja | https://www.nature.com/articles/s41598-020-71756-7 | Catalytic specificity of the Lactobacillus plantarum cystathionine -lyase presumed by the crystallographic analysis | 2020 | Y Matoba, M Noda, T Yoshida, K Oda, Y Ezumi- Scientific Reports, 2020 - nature.com | The reverse transsulfuration pathway, which is composed of cystathionine -synthase (CBS) and cystathionine -lyase (CGL), plays a role to synthesize l-cysteine using l-serine and the sulfur atom in l-methionine. A plant-derived lactic acid bacterium Lactobacillus plantarum SN35N |