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.
| Structure | Year released | #citations |
|---|---|---|
| 3IPW | 2009 | 0 |
| 5SCX | 2022 | 0 |
| 5SCM | 2022 | 0 |
| 3GNQ | 2009 | 0 |
| 7U2Q | 2022 | 0 |
| 7U2T | 2022 | 0 |
| 4K3Z | 2013 | 0 |
| 4K6C | 2013 | 0 |
| 7U35 | 2022 | 0 |
| 7U4H | 2022 | 0 |
| # | PDB | Additional SSGCID structures cited | Link | Title | Year | Citation | Highlighted abstract |
|---|---|---|---|---|---|---|---|
| 1 | 3kw3 | - | https://www.biorxiv.org/content/early/2018/06/13/346130.abstract | Computational evidence of a new allosteric communication pathway between active sites and putative regulatory sites in the alanine racemase of Mycobacterium | 2018 | J Jyothikumar, S Chandani, R Tangirala- bioRxiv, 2018 - biorxiv.org | Fig 3 Structure -based multiple sequence alignment of alanine racemases E. coli ( PDB code: 2RJG), S. pneumoniae ( PDB code: 3S46), P. fluorescens ( PDB code: 2ODO), P. aeruginosa ( PDB code: 1RCQ), A. baumannii ( PDB code: 4QHR), B. henselae ( PDB code: 3KW3 ) |
| 2 | 5dvw | - | http://journal.umpalangkaraya.ac.id/index.php/bjop/article/view/836 | Computational Drug Design against Ebola Virus Targeting Viral Matrix Protein VP30 | 2019 | A Venkatesan, L Ravichandran- Borneo Journal of, 2019 - journal.umpalangkaraya.ac.id | Protein structure preparation The protein crystal structure of Ebola VP30 protein ( PDB code: 5DVW ) with the resolution of 1.75 was retrieved from RCSB Protein Data Bank ( PDB ), a repository providing crystal structures of biotic macromolecules (Berman et al., 2000) |
| 3 | 4zju | - | https://www.sciencedirect.com/science/article/pii/S1476927123000208 | Computational docking investigation of phytocompounds from bergamot essential oil against Serratia marcescens protease and FabI: Alternative pharmacological | 2023 | KB Lokhande, A Tiwari, S Gaikwad, S Kore- Biology and Chemistry, 2023 - Elsevier | Also, the binding cavity information of the FabI model was taken from the template structure PDB ID: 4ZJU complexes with NAD crystal ligand and the binding cavity of the FabI model |
| 4 | 3kw3 | - | http://ir.inflibnet.ac.in:8080/jspui/handle/10603/67480 | Computational approach on drug targeted proteins in streptococcus pneumoniae Molecular modelling inhibitor design and docking studies | 2016 | TM Reddy - 2016 - ir.inflibnet.ac.in | ... Sequence alignment of Sp-AIr model with crystal structure alanine racemase (1SFT) based onsequence ... Air, indicates it closely related with 1SFT compare with other PDB's (2SFP, ... 2DY3 Air,1 SFT 2SFP 1EPV 1XQK 3HA1 2VD9 2VD8 3HUR ----- 3COS 3KW3 1RCQ 20D0 I ... |
| 5 | 6nb6 | 6nb7 | https://www.researchsquare.com/article/rs-33181/latest.pdf | Computational approach for the design of potential spike protein binding natural compounds in SARS-CoV2 | 2020 | A Basu, A Sarkar, U Maulik - 2020 - researchsquare.com | 2dd8:S, 2ghw:A, 1q4z:A, 1t7g:A, 1xjp:A, 5xlr:A, 5x58:A, 6nb6 :A, 6nb7 ASN 448 are also conserved in ve SARS CoV-2 spike protein PDB structures and changed in SARS-CoV 21. Guex, N., Peitsch, MC, Schwede, T. Automated comparative protein structure modeling with SWISS |
| 6 | 3gmt | - | http://search.proquest.com/openview/538b8312b902cea141c5c8db86405d91/1?pq-origsi... | Computational Approaches to Simulation and Analysis of Large Conformational Transitions in Proteins | 2017 | SL Seyler - 2017 - search.proquest.com | The intricacies of the current state of knowledge surrounding protein conformational. transitions and the structure -function connection is perhaps more easily understood in the and four in ligand-free (apo), open-like states ( PDB IDs 4ake, 2rh5, 3umf, 3gmt [26]) |
| 7 | 3gaf | - | http://www.jpbms.info/index.php?option=com_docman&task=doc_download&gid=64&Itemi... | Computational analysis of the SAG 13 gene encoding an alcohol dehydrogenase | 2010 | M Adhikary, S Ganguli, HJ Chakraborty, P Basu et al. - Journal of Pharmaceutical and Biomedical Sciences - jpbms.info | ... protein structure to be used as template using BLAST (Basic Local Alignment Search Tool) (1) against PDB (Protein Data Bank). The sequence with maximum identity and less e value was chosen and used as the reference structure for homology modeling. [3GAF, 1AE1 and ... |
| 8 | 3py6 | - | http://www.sciencedirect.com/science/article/pii/S0010482513003661 | Computational analysis of N-H...PI interactions and its impact on the structural stability of beta-lactamases | 2014 | P Lavanya, S Ramaiah, A Anbarasu - Computers in Biology and Medicine, 2014 - Elsevier | ... Three dimensional structures of ?-lactamases were retrieved from Protein Data Bank (PDB) [26]. ... The PDB codes of selected 67 ?-lactamases in the dataset are as follows: ... A, 3IF6-A, 3L6N-A, 3LVZ-A, 3LY3-A, 3M2K-A, 3OPL-A, 3OZH-A, 3P09-A, 3PAE-A, 3PG4-A, 3PY6-A, 3QI0-A ... |
| 9 | 7so9 | - | https://www.nature.com/articles/s41421-023-00535-1 | Comprehensive structural analysis reveals broad-spectrum neutralizing antibodies against SARS-CoV-2 Omicron variants | 2023 | X Chi, L Xia, G Zhang, X Chi, B Huang, Y Zhang- Cell Discovery, 2023 - nature.com | with multiple structures , we selected the subcomplex deposited earliest in the PDB database ID: 7SO9 ) were manually refined based on the focused-refined cryo-EM map. Each residue |
| 10 | 7luy | 6wct | https://www.nature.com/articles/s41467-025-61732-y | Comprehensive profiling of the catalytic conformations of human Guanylate kinase | 2025 | L Wang, Z Li, Y Xuan, J Qin, S Li, F Zhong- Nature, 2025 - nature.com | The atomic coordinates and structure factors for GMPK in its free form and substrate-bound forms generated in this study were deposited to the Protein Data Bank ( PDB ) ... The source data underlying Figs. 1i, 2c, 3i and Supplementary Fig. 6c–i, 9a–d, 11e are provided as a Source Data file. Previously published data for crystal structures of GMPK are available with PDB accession codes: 1EX6, 1EX7, 1LVG, 1S4Q, 1S96, 1ZNX, 1ZNW, 1GKY, 2ANB, 2ANC, 2QOR, 3TR0, 6WCT, 7LUY, 8PTS. |