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

Structure	Year released	#citations
8T7W	2023	0
8T7Z	2023	0

Manually reviewed citations

#	PDB	Additional SSGCID structures cited	Link	Title	Year	Citation	Highlighted abstract
1	6q05	-	https://arxiv.org/abs/2002.06196	Structural modeling of 2019-novel coronavirus (nCoV) spike protein reveals a proteolytically-sensitive activation loop as a distinguishing feature compared to SARS	2020	JA Jaimes, NM Andre, JK Millet- arXiv preprint arXiv, 2020 - arxiv.org	Protein Data Base: HCoV-HKU1 ( PDB # 5I08), MHV ( PDB # 3JCL), MERS-CoV ( PDB # 6Q05 ), SARS-CoV ( PDB # 5X58), FCoV-UU4 ( PDB # 6JX7), IBV-M41 ( PDB # 6CV0) and HCoV-NL63 ( PDB # 5SZS). Pairwise S structure . Additional
2	6q05	-	https://biointerfaceresearch.com/wp-content/uploads/2020/05/2069583710560396057....	Evaluation of Coronavirus families & Covid-19 proteins: molecular modeling study	2020	M Monajjemi, S Shahriari- Biointerface Res. Appl, 2020 - biointerfaceresearch.com	Several Proteins, receptors, S proteins including s1 and s2 such as 6LU7, 6Q05 , 4oW0, 6nur The Structure Preparation modules of MOE were used to correct PDB inconsistencies and to assign the structural knowledge of the CoV-RNA synthesis complexes was a structure of the
3	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]
4	6q05	-	https://www.sciencedirect.com/science/article/pii/S0022283620302874	Phylogenetic analysis and structural modeling of SARS-CoV-2 spike protein reveals an evolutionary distinct and proteolytically sensitive activation loop	2020	JA Jaimes, NM Andr, JS Chappie, JK Millet- Journal of molecular, 2020 - Elsevier	Volume 432, Issue 10, 1 May 2020, Pages 3309-3325. Journal home page for Journal of Molecular Biology. Phylogenetic Analysis and Structural Modeling of SARS-CoV-2 Spike Protein Reveals an Evolutionary Distinct and Proteolytically Sensitive Activation Loop
5	6q05	-	https://www.nature.com/articles/s41467-020-16876-4	Cryo-EM structures of HKU2 and SADS-CoV spike glycoproteins provide insights into coronavirus evolution	2020	J Yu, S Qiao, R Guo, X Wang- Nature communications, 2020 - nature.com	structures of HKU2 and SADS-CoV spike glycoproteins provide insights into coronavirus evolution. Download PDF. Article; Open Access; Published: 17 June 2020. Cryo-EM structures of HKU2 and SADS-CoV spike glycoproteins provide insights into coronavirus evolution
6	6q05	-	https://www.biorxiv.org/content/10.1101/2020.04.17.047548v1.abstract	Distinct structural flexibility within SARS-CoV-2 spike protein reveals potential therapeutic targets	2020	SH Chen, MT Young, J Gounley, C Stanley, D Bhowmik- BioRxiv, 2020 - biorxiv.org	of SARS-CoV-2 ( PDB 6VSB [3]), SARS-CoV-1 ( PDB 6CRZ [15]), MERS- CoV ( PDB 6Q05 [16]), and The trimeric state of the SARS-CoV-2 S protein consists of all three chains in PDB 6VSB Each structure was solvated in the center of a water box with a minimum distance of 15 A
7	6q05	-	https://www.journal.atmph-specialissues.org/uploads/179/8422_pdf.pdf	A Review of Current Literature on sudden Upsurge of COVID-19	2020	R Sharma- Annals of Tropical Medicine and Public, 2020 - journal.atmph-specialissues.org	6Q05 MERSCoV S structure in complex with SialylLewis Available from: http://www.rcsb.org/ pdb /results/results.do?tabtoshow=Unreleased and qrid=7E90BED0 coronavirus papain-like novel protease inhibitors: Design, synthesis, protein-ligand X-ray structure and biological
8	6q06	-	https://www.sciencedirect.com/science/article/pii/S0924857920301102	Structural and molecular modelling studies reveal a new mechanism of action of chloroquine and hydroxychloroquine against SARS-CoV-2 infection	2020	J Fantini, C Di Scala, H Chahinian, N Yahi- International journal of, 2020 - Elsevier	N-acetylneuraminic acid (Neu5Ac) was generated with the Hyperchem database. 9-O-acetyl-N-acetylneuraminic acid (9-O-SIA) was retrieved from pdb file 6Q06 [18] Its three-dimensioanl structure was retrieved from pdb file # 4V2O [19]
9	6q06	-	https://www.biorxiv.org/content/10.1101/2021.04.14.439284v1.abstract	Cryptic SARS-CoV2-spike-with-sugar interactions revealed by'universal'saturation transfer analysis	2021	CJ Buchanan, B Gaunt, PJ Harrison, A Le Bas, A Khan- bioRxiv, 2021 - biorxiv.org	computational modelling environments provide exact structural models. In this way, uSTA analysis provides an automated pipeline from raw NMR free induction decay (FID) signals all the way to proteinligand structures in a freely available form for the non-expert
10	6q06	3sia	https://www.mdpi.com/2076-393X/8/4/587	Host Receptors of Influenza Viruses and CoronavirusesMolecular Mechanisms of Recognition	2020	N Sriwilaijaroen, Y Suzuki- Vaccines, 2020 - mdpi.com	A CoV structure with S and HE spikes and positions of S1-NTD and S1-CTD on the S IAVs from avians, either wild birds or domestic birds, typically prefer the 2, 3Sia terminal This representative viral HA is from pdb ID of 3ube, which showed a 2009 pandemic HA in complex... Side view of a surface diagram of a trimeric CoV S protein (pdb: 6q06 [148])