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Your search keyword '"Zou, Jinhao"' showing total 13 results
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13 results on '"Zou, Jinhao"'

7. Abstract WMP2: Acute Stroke Treatment In Patients With Pre-exiting Disability: A Secondary Analysis Of The BEST-MSU Trial

Author

Pirlog, Bianca O, primary, Jacob, Asha P, additional, Yamal, Jose-Miguel, additional, Parker, Stephanie, additional, Rajan, Suja S, additional, Bowry, Ritvij, additional, Czap, Alexandra L, additional, Bratina, Patti, additional, Gonzalez, Michael O, additional, Singh, Noopur, additional, Wang, Mengxi, additional, Zou, Jinhao, additional, Gonzales, Nicole R, additional, Jones, William J, additional, Alexandrov, Anne W, additional, Alexandrov, Andrei V, additional, Navi, Babak B, additional, Nour, May, additional, Spokoyny, Ilana, additional, Mackey, Jason S, additional, Fink, Matthew E, additional, Saver, Jeffrey L, additional, English, Joey D, additional, Barazangi, Nobl, additional, Volpi, John J, additional, Rao, Chetan P, additional, Kass, Joseph S, additional, Griffin, Laura, additional, Persse, David, additional, and Grotta, James C, additional

Published
2023
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13. DR-SIP: protocols for higher order structure modeling with distance restraints- and cyclic symmetry-imposed packing.

Author

Chan, Justin, Zou, Jinhao, Ortiz, Christopher Llynard, Chien, Chi-Hong Chang, Pan, Rong-Long, and Yang, Lee-Wei

Subjects
*QUATERNARY structure, *MEMBRANE proteins, *DISTANCES, *MONOMERS, *PRIOR learning
Abstract

Motivation Quaternary structure determination for transmembrane/soluble proteins requires a reliable computational protocol that leverages observed distance restraints and/or cyclic symmetry (C n symmetry) found in most homo-oligomeric transmembrane proteins. Results We survey 118 X-ray crystallographically solved structures of homo-oligomeric transmembrane proteins (HoTPs) and find that ∼97% are C n symmetric. Given the prevalence of C n symmetric HoTPs and the benefits of incorporating geometry restraints in aiding quaternary structure determination, we introduce two new filters, the distance-restraints (DR) and the Symmetry-Imposed Packing (SIP) filters. SIP relies on a new method that can rebuild the closest ideal C n symmetric complex from docking poses containing a homo-dimer without prior knowledge of the number (n) of monomers. Using only the geometrical filter, SIP, near-native poses of 7 HoTPs in their monomeric states can be correctly identified in the top-10 for 71% of all cases, or 29% among 31 HoTP structures obtained through homology modeling, while ZDOCK alone returns 14 and 3%, respectively. When the n is given, the optional n -mer filter is applied with SIP and returns the near-native poses for 76% of the test set within the top-10, outperforming M-ZDOCK's 55% and Sam's 47%. While applying only SIP to three HoTPs that comes with distance restraints, we found the near-native poses were ranked 1st, 1st and 10th among 54 000 possible decoys. The results are further improved to 1st, 1st and 3rd when both DR and SIP filters are used. By applying only DR, a soluble system with distance restraints is recovered at the 1st-ranked pose. Availability and implementation https://github.com/capslockwizard/drsip. Supplementary information Supplementary data are available at Bioinformatics online. [ABSTRACT FROM AUTHOR]

Published
2020
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