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
3DAH	2008	13
4GIE	2012	13
5DVW	2015	13
3CXK	2008	13
4O3V	2014	13
3MEN	2010	12
3L56	2010	12
3MD7	2010	12
3KHW	2010	12
3I4E	2009	12

Manually reviewed citations

#	PDB	Additional SSGCID structures cited	Link	Title	Year	Citation	Highlighted abstract
1	3o0m	4lsm	https://link.springer.com/content/pdf/10.1038/srep13652.pdf	Dimeric interactions and complex formation using direct coevolutionary couplings	2015	RN Dos Santos, F Morcos, B Jana, AD Andricopulo- Scientific reports, 2015 - Springer	Structural Modeling. All the homodimers used in this study were retrieved from Protein Data Bank ( PDB )60. The PDB accession code for each structure is shown in Table 1. ... Histidine triad protein 3O0M 149 ... GAPDH 4LSM 346 Gp_dh_N
2	6ws6	-	https://www.science.org/doi/abs/10.1126/scitranslmed.abj7125	A broadly cross-reactive antibody neutralizes and protects against sarbecovirus challenge in mice	2021	DR Martinez, A Schfer, S Gobeil, D Li- Science translational, 2021 - science.org	Binding and structural analysis showed high affinity binding of DH1047 to an epitope that is ACE2 (yellow surface representation, PDB 6VW1) binding to RBD is sterically hindered by
3	3eon	-	http://pubs.acs.org/doi/pdf/10.1021/cr900368a	Update 1 of: Proteases universally recognize beta strands in their active sites	2011	PK Madala, JDA Tyndall, T Nall, DP Fairlie - Chemical Reviews, 2011 - ACS Publications	... All endoprotease complexes deposited in the Protein Data Bank (PDB http://www.rcsb.org/pdb mir- rored at http://oca.wehi.edu.au:8383/oca/22) through July 2009 were included in this study, updated with only a few key structures beyond that date. ...
4	7r7n	-	https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(22)00311-5/fullt...	Monoclonal antibody therapies against SARS-CoV-2	2022	D Focosi, S McConnell, A Casadevall- The Lancet Infectious, 2022 - thelancet.com	PDB 7K8M). Antibody binding classes 14 are displayed as mesh space-filling. (C) Structures in complex with a single RBD domain ( PDB 6XEY). Antibody binding classes RBS-A, RBS- ... S2D10633 7r7n RBM class III*
5	5b8i	-	https://www.sciencedirect.com/science/article/pii/S1570963919300445	Fungal Lanosterol 14-demethylase: A target for next-generation antifungal design	2020	BC Monk, AA Sagatova, P Hosseini, YN Ruma- et Biophysica Acta (BBA, 2020 - Elsevier	cerevisiae LDM as a template ( PDB 4LXJ), suggested that crystal structure of the catalytic domain of human CYP51 ( PDB calcineurinB in complex with FK506 ( 5B8I ); S. cerevisiae Elf2
6	6vyb	-	https://www.tandfonline.com/doi/abs/10.1080/07391102.2020.1778537	Ethnomedicines of Indian origin for combating COVID-19 infection by hampering the viral replication: using structure-based drug discovery approach	2021	S Alagu Lakshmi, RMB Shafreen, A Priya- Structure and, 2021 - Taylor & Francis	CoV-2 main protease ( PDB ID: 5R82. pdb ), spike protein ( PDB ID: 6VYB . pdb ) and human In order to minimize the energy, PDB structures of the target proteins were refined through for combating COVID-19 infection by hampering the viral replication: using structure -based drug
7	5uxx	-	https://www.nature.com/articles/s41579-020-00450-2	Diverse and unified mechanisms of transcription initiation in bacteria	2020	J Chen, H Boyaci, EA Campbell- Nature Reviews Microbiology, 2020 - nature.com	Transcription of DNA is a fundamental process in all cellular organisms. The enzyme responsible for transcription, RNA polymerase, is conserved in general architecture and catalytic function across the three domains of life. ... Fig 5 Mycobacterium tuberculosis σK–RskA (PDB ID 4NQW; panel Ae) 85, Bartonella quintana σE–NepR (PDB ID 5UXX: panel Af),
8	7n8i	-	https://www.nature.com/articles/s41592-022-01645-6	Improved AlphaFold modeling with implicit experimental information	2022	TC Terwilliger, BK Poon, PV Afonine, CJ Schlicksup- Nature, 2022 - nature.com	To emulate the situation where no similar structure is present in the PDB , templates from the PDB were not used. For each protein we then examined the four AlphaFold models
9	3f9i	3grp	https://www.cell.com/cell-chemical-biology/pdf/S1074-5521(15)00442-1.pdf	Human ISPD is a cytidyltransferase required for dystroglycan O-mannosylation	2015	M Riemersma, DS Froese, W van Tol, UF Engelke- Chemistry & biology, 2015 - cell.com	To provide molecular insight into hISPD properties, we determined the crystal structure of structure factors have been deposited with the PDB under the accession code PDB : 4CVH. Structure similarity of hISPD C-terminal domain, identified using DALI 3f9i 11.7 3.3 137 220 12 FabG R. prowazekii ... 3grp 11.4 3.2 131 209 15 B. henseliae
10	6wpt	-	https://advances.sciencemag.org/content/7/16/eabf3671?utm_campaign=TrendMD_1&utm...	The SARS-CoV-2 spike variant D614G favors an open conformational state	2021	RA Mansbach, S Chakraborty, K Nguyen- Science, 2021 - advances.sciencemag.org	1 Structural representation of the Spike protein. (A) The Spike complex is shown in the all-down conformation. Its S1 and S2 subunits are depicted in red and blue We display the domains highlighted in the Spike structure , shown from two different perspectives ... S309 Fab binding to up-RBD was modeled by rigid-body alignment to closed-RBD and Fab interactions from PDB structure 6WPT (21), using the backbone of residues 331 to 527 for least squares fitting.