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| References |
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[Real-time structure search and structure classification for AlphaFold protein models]
Aderinwale Tunde, Vijay Bharadwaj, Charles Christoffer, Genki Terashi, Zicong Zhang, Rashidedin Jahandideh, Yuki Kagaya, and Daisuke Kihara.
Real-time structure search and structure classification for AlphaFold protein models. Communications Biology 5: 316, 1-12 (2022).
[Pubmed]
[PDF]
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[If 3D-surfer is used for publication, please cite]
David La, Juan Esquivel-Rodriguez, Vishwesh Venkatraman, Bin Li, Lee Sael, Steven Ueng, Steven Ahrendt, and Daisuke Kihara.
3D-SURFER: software for high throughput protein surface comparison and analysis. Bioinformatics
25:2843-2844(2009).
[Pubmed]
[PDF]
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[Applcation of the 3D Zernike descriptors for global protein shape comparison]
Lee Sael, Bin Li, David La, Yi Fang, Karthik Ramani, Raif Rustamov and Daisuke Kihara.
Fast protein tertiary structure retrieval based on global surface shape similarity.
Proteins: Structure, Function, and Bioinformatics
72:1259-1273(2008).
[Pubmed]
[PDF]
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[Visgrid algorithm for pocket/protrusion/flat region detection in protein surface]
Bin Li, Srinivasan Turuvekere, Manish Agrawal, David La, Karthik Ramani and Daisuke Kihara.
Characterization of local geometry of protein surfaces with the Visibility Criterion.
Proteins: Structure, Function, and Bioinformatics
71: 670-683(2008).
[Pubmed]
[PDF]
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