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 7jv2 7jva https://www.cell.com/cell-reports/pdf/S2211-1247(21)01652-1.pdf Structural analysis of receptor binding domain mutations in SARS-CoV-2 variants of concern that modulate ACE2 and antibody binding 2021 D Mannar, JW Saville, X Zhu, SS Srivastava- Cell reports, 2021 - cell.com See Table S2 for PDB entries included in this analysis. (D) Structural overlap of all antibodies selected on the SARSCoV-2 RBD. Mutational positions within the RBD are highlighted. (E)
2 7lxw 7lxx, 7ly0, 7soa, 7sof, 7ly3 https://www.cell.com/cell-reports/pdf/S2211-1247(22)01868-X.pdf Structural analysis of receptor engagement and antigenic drift within the BA. 2 spike protein 2023 JW Saville, D Mannar, X Zhu, AM Berezuk, S Cholak- Cell Reports, 2023 - cell.com Cryo-EM structures of the BA.2 S-human ACE2 complex and of the extensively mutated BA.2 Our analysis reveals structural mechanisms underlying the antigenic drift in the rapidly
3 3gvg 3kxq http://scholar.google.com/https://bmcbioinformatics.biomedcentral.com/articles/1... Structural analysis on mutation residues and interfacial water molecules for human TIM disease understanding 2013 Z Li, Y He, Q Liu, L Zhao, L Wong - BMC , 2013 - bmcbioinformatics.biomedcentral. ... Domain. PDB. Organism. Resolution (). #Water. #Atoms. ... 1.162. 0.680. 3GVG. M. tuberculosis.1.55. 41. ... Once the aligned wild type and mutant structures are obtained, the 25 water moleculesin wild type are searched in the mutant structure to determine whether it reappears or not ...
4 7jv2 7jvc, 7jw0, 7ra8, 7ral https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1010260 Structural and antigenic variations in the spike protein of emerging SARS-CoV-2 variants 2022 A Mittal, A Khattri, V Verma- PLoS Pathogens, 2022 - journals.plos.org Recent structural and functional studies have mapped the -CoV-2 variants; (2) the structural basis for antibody-mediated fitness, and in conjunction with the structures of the spike-nAb ... the neutralization mechanism involves direct competition with the ACE2 receptor. These antibodies include C002 (PDB: 7K8S) [70], C104 (PDB: 7K8U) [70], S2H13 (PDB: 7JV2) [77], C119 (PDB: 7K8U) [70], C121 (PDB: 7K8X) [70], LY-CoV555 (PDB: 7KMG), DH1041 (7LAA), COVA2-15 (EMD-22061) [82], 2–43 (EMD-22275) [94],
5 3k9w - https://www.sciencedirect.com/science/article/pii/S1570963919300469 Structural and binding studies of phosphopantetheine adenylyl transferase from Acinetobacter baumannii 2019 A Gupta, PK Singh, N Iqbal, P Sharma- et Biophysica Acta (BBA, 2019 - Elsevier PDB ID: 3ND5; 12), HpPPAT ( PDB ID: 3NV7; 13), BpPPAT ( PDB ID: 3K9W ; 14), CbPPAT ( PDB ID: 4F3R; unpublished), PaPPAT ( PDB ID: 3X1J; 15) and MaPPAT ( PDB ID: 5O06 As indicated by the structure of AbPPAT with CoA ( PDB ID: 5YH7), the ligand binding cleft
6 3rr2 - http://www.sciencedirect.com/science/article/pii/S1570963913004147 Structural and biochemical analyses of< i> Microcystis aeruginosa</i> O-acetylserine sulfhydrylases reveal a negative feedback regulation of cysteine biosynthesis 2014 M Lu, BY Xu, K Zhou, W Cheng, YL Jiang? - Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 2014 - Elsevier ... The sequences are (PDB codes in parentheses) Mycobacterium tuberculosis OASS (2Q3D), Haemophilus influenzae OASS (1Y7L), Salmonella typhimurium OASS (1OAS), Mycobacterium marinum Atcc Baa-535 OASS (3RR2), Thermotoga maritima OASS (3FCA), Arabidopsis ...
7 5eks - https://journals.asm.org/doi/abs/10.1128/jb.00248-20 Structural and biochemical analyses reveal that chlorogenic acid inhibits the shikimate pathway 2020 N Neetu, M Katiki, A Dev, S Gaur, S Tomar- Journal of, 2020 - Am Soc Microbiol replacement method using the coordinates of chain A of DHQS enzyme from Vibrio cholerae ( PDB identifier [ID]: 3OKF Structural comparison of PaDHQS structure with its homologs closer to its homologs from A. nidulans (1SG6), V. cholerae (3OKF), A. baumannii ( 5EKS ), and H
8 3cez - http://onlinelibrary.wiley.com/doi/10.1002/prot.23141/full Structural and biochemical analysis of mammalian methionine sulfoxide reductase B2 2011 FL Aachmann, GH Kwak, R Del Conte? - Proteins: Structure, Function, and Bioinformatics, 2011 - Wiley Online Library ... coordinate files of the minimized MsrB2 family are deposited in the Protein Data Bank (PDB) under accession ... pneumoniae (3e0o),49Neisseria meningitidis (3hcg),46Methanothermobacter thermautotrophicus (2k8d), Burkholderia pseudomallei (3cez), Neisseria gonorrhoeae ...
9 4mei 4o3v, 4jf8, 4lso, 4nhf, 4kz1 https://www.frontiersin.org/articles/10.3389/fmolb.2021.642606/full Structural and Biochemical Analysis of OrfG: The VirB8-like Component of the Conjugative Type IV Secretion System of ICESt3 From Streptococcus 2021 J Cappele, A Mohamad Ali- Frontiers in molecular, 2021 - frontiersin.org The first step of structure comparison was conducted with both DALI (Holm and Sander, 1995) and and Henrick, 2004) to fetch a complete list of VirB8 structures (26 PDB entries 16 structures was conserved (2cc3, 3ub1, 3wz3, 3wz4, 4akz, 4ec6, 4jf8, 4kz1, 4lso, 4mei , 4nhf, 4o3v
10 3r1i - http://www.jbc.org/content/early/2019/06/17/jbc.RA119.009390.short Structural and biochemical characterization of 20-hydroxysteroid dehydrogenase from Bifidobacterium adolescentis strain L2-32 2019 HL Doden, RM Pollet, SM Mythen, Z Wawrzak- Journal of Biological, 2019 - ASBMB replacement with the structure of an SDR from Mycobacterium marinum ( PDB : 3R1I ) and refined indicate these alanine substitutions did not sig- nificantly affect secondary structural elements (Fig extended N-terminus is important for second- ary and quaternary structure In both