SSGCID
Seattle Structural Genomics Center for Infectious Disease

Cited Structures: list of articles citing SSGCID structures

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.

Cited structures

Manually reviewed citations

# PDB Additional SSGCID structures cited Link Title Year Citation Highlighted abstract
1 3pfd - https://www.sciencedirect.com/science/article/pii/S0141022918305313 Site-directed mutation to improve the enzymatic activity of 5-carboxy-2-pentenoyl-CoA reductase for enhancing adipic acid biosynthesis 2019 J Yang, Y Lu, Y Zhao, Z Bai, Z Ma, Y Deng- Enzyme and Microbial, 2019 - Elsevier 3PFD was the PDB ID of the template. Therefore, we used 3PFD as the template to build the homology model of Tfu_1647 protein using DS 2017R2 [17] We then used the Deriding-like force field in DS 2017R2 to optimize the structure to ensure that we produced a
2 4hvt - https://www.sciencedirect.com/science/article/pii/S0141022920300417 Characterization and rational design for substrate specificity of a prolyl endopeptidase from Stenotrophomonas maltophilia 2020 J Yu, J Wu, D Xie, L Du, YJ Tang, J Xie- Enzyme and Microbial, 2020 - Elsevier from Rickettsia typhi ( PDB ID: 4 HV T, https://www.rcsb.org/ structure / 4HVT ) as template The structure of SmPEP was built by the Swiss Model server and crystal structure ( PDB ID: 4 On the basis of the simulated structure , Arg263 cannot form the original ring stacking with Phe479
3 3hhe 3uw1 https://www.sciencedirect.com/science/article/pii/S0141022920300971 Biochemical and structural insights into an Ochrobactrum sp. CSL1 ribose-5-phosphate isomerase A and its roles in isomerization of rare sugars 2020 X Ju, X Xu, M Shen, X Mo, H Fan, L Liangzhi- Enzyme and Microbial, 2020 - Elsevier thermophilus (TtRpiA, 1UJ5), Burkholderia thailandensis (BtRpiA, 3UW1), Bartonella henselae (BhRpiA, 3HHE ) and E. coli (EcRpiA, 1O8B) with ligand-binding structures in PDB , the sequence Homology modeling is an option to investigate the structure -activity relationship of
4 4k9d - https://www.sciencedirect.com/science/article/pii/S0141113618301211 The glyceraldehyde-3-phosphate dehydrogenase of the shrimp Litopenaeus vannamei: Molecular cloning, characterization and expression during hypoxia 2018 L Camacho-Jimnez, AB Peregrino-Uriarte- Marine Environmental, 2018 - Elsevier We also made a structural analysis in silico of the deduced protein from a comparative the GAPDH holoenzyme from P. versicolor solved by X-ray diffraction (2 ) ( PDB : 1SZJ, chain Finally, the LvGAPDH multimeric complex model was obtained from the former structure with the
5 4wxt - https://www.sciencedirect.com/science/article/pii/S014181301830610X Inhibition of thioredoxin A1 from Corynebacterium pseudotuberculosis by polyanions and flavonoids 2018 RJ Eberle, LA Kawai, FR de Moraes, D Olivier- International journal of, 2018 - Elsevier The initial model of the Cp-TrxA1 protein was obtained by homology modeling with the M. avium Trx structure ( PDB : 4WXT ; 50% homology), in order to Structural superposition of the Cp-TrxA1 homology model and the M. avium Trx structure showed a RMSD of 0.188 (Fig
6 5upg - https://www.sciencedirect.com/science/article/pii/S0141813018328204 The inhibitory and binding studies of methyl-sulfone hydroxamate based inhibitors against LpxC from drug resistant Moraxella catarrhalis using biophysical 2018 A Sharma, V Kumar, S Pratap, P Kumar- International journal of biological, 2018 - Elsevier Similarly, a crystal structure of LpxC from P. aeruginosa complexed with the LpxC-4 inhibitors (PDB ID: 5UPG) have also shown the interactions of ligand at these two sites.
7 4f3p - https://www.sciencedirect.com/science/article/pii/S0141813018328228 Local structural motifs in proteins: Detection and characterization of fragments inserted in helices 2018 N Balasco, G Smaldone, A Ruggiero- International journal of, 2018 - Elsevier insertion: A) the substrate binding proteins ( PDB IDs: 1GGG, 1HLS, 1IIT, 2IEE, 2YLN, 4EQ9, 4F3P , 4H5F, 4I62 in red, 3QFH in blue), and C) the elongation factors EF-1A/EF-Tu ( PDB IDs: 1EFC In particular, they could (a) present an irregular loop structure , (b) form -hairpins or
8 3mx6 - https://www.sciencedirect.com/science/article/pii/S0141813019301175 Discovery of a new class of type 1 methionine aminopeptidases that have relaxed substrate specificity 2019 SC Bala, N Haque, V Pillalamarri, R Reddi- International journal of, 2019 - Elsevier 3MX6 , R. prowazekii, 99% (C), 1% (L) Based on this analysis, MetAP1n has different active site architecture and hence has a substrate preference for leucine in addition 3c. Column 2 describes the result analysis of the HSSP file associated with EcMetAP1a structure ( PDB : 1C21
9 4xk1 - https://www.sciencedirect.com/science/article/pii/S014181301930755X N-terminal residues are crucial for quaternary structure and active site conformation for the phosphoserine aminotransferase from enteric human parasite E. histolytica 2019 RK Singh, P Tomar, S Dharawat, S Kumar- International journal of, 2019 - Elsevier 3. Comparative analysis, using the RAPIDO server, of PSAT structures from various organisms with the EhPSAT structure . PDB IDs, Sequence identity (%), RMSD with EhPSAT monomer in (number of residues compared) 4XK1 (P. aeruginosa) [38], 40, 1.52 (for 337 residues)
10 6cw5 - https://www.sciencedirect.com/science/article/pii/S0141813019319464 Unraveling structural insights of ribokinase from Leishmania donovani 2019 S Gatreddi, V Pillalamarri, D Vasudevan- International journal of, 2019 - Elsevier Z-score 42.3; rmsd 2.1 for 307 C atoms), C. neoformans ( PDB ID: 6CW5 , Z-score 36.5; rmsd 2.7 for 290 C atoms) and adenosine kinase of A. tumefaciens ( PDB ID: 2RBC of a five amino acid stretch was observed at the two positions in the primary structure of LdRK