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
3D64	2008	14
7JV6	2021	14
3CXK	2008	14
3MEN	2010	14
4WI1	2016	14
3R20	2011	14
4DLP	2012	14
4ODJ	2014	14
3DMO	2008	14
3GVG	2009	13

Manually reviewed citations

#	PDB	Additional SSGCID structures cited	Link	Title	Year	Citation	Highlighted abstract
1	6xdh	-	https://academic.oup.com/bib/article-abstract/22/2/1476/6146769	A molecular modelling approach for identifying antiviral selenium-containing heterocyclic compounds that inhibit the main protease of SARS-CoV-2: an in silico	2021	A Rakib, Z Nain, SA Sami, S Mahmud- Briefings in, 2021 - academic.oup.com	Abstract. Coronavirus disease 2019 (COVID-19), an infectious disease caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), has been declar. ... For docking analysis, the following receptors were selected: PDB ID 6M3M for N protein, PDB ID 2GHV for the RBD of the S protein, PDB ID 6W9C for PLpro, PDB ID 6 M71 for RdRp, PDB ID 6ZSL for SARS-CoV-2 helicase (nsp13), 6WC1 for nsp9 RNA-replicase, and 6XDH for nsp15
2	5eo6	-	https://scholarworks.montana.edu/xmlui/handle/1/14685	A molecular, structural, and cellular multiple-level study aimed at understanding the unique reaction catalyzed by the last enzyme in the heme-biosynthesis pathway of	2018	AI Celis Luna - 2018 - scholarworks.montana.edu	Overlay of the structures of a representative heme b-bound chlorite dismutase and solvent This research aimed to understand ChdC function at the molecular, structural , and cellular levels The coproheme-bound ChdC structure revealed a helical-loop that is flexible and moves
3	6tys	7ki6, 7ki4	https://www.sciencedirect.com/science/article/pii/S016635422500141X	A monoclonal antibody targeting conserved regions of pre-fusion protein cross-neutralizes Nipah and Hendra virus variants	2025	T Li, H Xu, M Zhang, J Nie, B Liao, J Xie, Y Jiang, Y Liu- Antiviral Research, 2025 - Elsevier	The mAbs developed in this study and their conserved cross-neutralizing epitopes elucidated by structural analysis may contribute to the control of highly pathogenic HNV outbreaks. ... Local resolution estimation and filtering were performed using CryoSPARC. The cryo-EM structure of the NiV-F ectodomain (Protein Data Bank [PDB]: 6TYS) and crystal structure of the Fab (PDB: 7EJY) were aligned with the cryo-EM density map using UCSF Chimera
4	3p96	-	https://www.nature.com/articles/s42003-023-05402-z	A morpheein equilibrium regulates catalysis in phosphoserine phosphatase SerB2 from Mycobacterium tuberculosis	2023	E Pierson, F De Pol, M Fillet, J Wouters- Communications Biology, 2023 - nature.com	structure 14 ( PDB : 3P96 ). The residues are exposed to solvent and not engaged in intramolecular interactions. The difference in numbering comes from the fact that MaSerB bears two
5	6tys	-	https://www.nature.com/articles/s41594-025-01598-2	A nanobody-based therapeutic targeting Nipah virus limits viral escape	2025	A Isaacs, GV Nieto, X Zhang, N Modhiran- Nature Structural &, 2025 - nature.com	Data Bank ( PDB ) 5EVM) and other antibody-bound NiV F structures ( PDB 6TYS and 7UPD) to a previously determined cryo-EM structure of apo F ( PDB 8DNG), which faces inward
6	2kok	-	http://link.springer.com/article/10.1007/s10142-012-0296-x	A new arsenate reductase involved in arsenic detoxification in Anabaena sp. PCC7120	2013	S Pandey, AK Shrivastava, VK Singh, R Rai… - Functional & integrative …, 2013 - Springer	... b Structure-based multiple sequence alignment of All0195 homologs. ... 261278552
7	2kn9	-	https://www.biorxiv.org/content/10.1101/2020.10.27.356691v1.abstract	A new twist of rubredoxin function in M. tuberculosis	2020	T Sushko, A Kavaleuski, I Grabovec, A Kavaleuskaya- bioRxiv, 2020 - biorxiv.org	21]. Previously, a zinc-substituted RubB structure was solved by NMR ( PDB ID: 2KN9 ). Pairwise . In the NMR model, residues at C and N termini show backbone variability, while the rest of the structure remain almost unperturbed
8	6vju	-	https://www.biorxiv.org/content/10.1101/2020.12.23.424250v1.abstract	A novel deep-sea bacterial threonine dehydratase drives cysteine desulfuration and hydrogen sulfide production	2020	N Ma, Y Sun, W Zhang, C Sun- bioRxiv, 2020 - biorxiv.org	of psTD with mutation of R77E (R is mutated to E; PDB 7DAR) was also solved for 156 comparison 1P5J, 6VJU (1P5J: Ser dehydratase, 6VJU : Cys synthase), which is directly opened to 193 methods. Based on the structure of psTD, its mutant and complex with PLP, we 231
9	3rmi	-	https://uwc-usa.academia.edu/Bar%C4%B1%C5%9FEkim/Drafts	A novel entropy-based hierarchical clustering framework for ultrafast protein structure search and alignment	2016	B Ekim - academia.edu	... Four uncharacterized proteins (1IVZ, 3B4Q, 3DDE, and 4RGI) and their closest structural neighbors (2E7V, 3RMI, 3HLX, and 5BV3, respectively), printed as output by Esperite (Cosine distance between any one of the pairs were 0.0), and to be investigated further through protein nuclear magnetic resonance spectroscopy. ...
10	3ecd	3h7f	http://www.biomedcentral.com/1472-6750/14/93	A novel serine hydroxymethyltransferase from Arthrobacter nicotianae: characterization and improving catalytic efficiency by rational design	2014	W Jiang, L Chen, S Yuan, B Li, Z Liu - BMC biotechnology, 2014 - biomedcentral.com	... directed mutagenesis was indicated on the three-dimensional structure of AnSHMT, which wasconstructed from the known x-ray structure of Burkholderia Pseudomallei MycobacteriumTuberculosis T.Th.Hb8 (PDB entry 3H7F, 2DKJ and 3ECD) using Swiss ...