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publications [2020/04/03 08:16]
xfel
publications [2020/10/29 03:44] (current)
xfel
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 ====2020==== ====2020====
  
 +    -Ji-Hye Yun; Jae-Hyun Park; Zeyu Jin; Mio Ohki; Yang Wang; Cecylia Severin Lupala; Haiguang Liu; Sam-Yong Park; Weontae Lee. Structure-based functional modification study of a cyanobacterial chloride pump for transporting multiple anions. **Journal of Molecular Biology**. Published online on July 25th, 2020.
 +    - V Kumar, H Hoag, S Sader, N Scorese, H Liu, C Wu. GDP Release from the Open Conformation of Gα Requires Allosteric Signaling from the Agonist-Bound Human β2 Adrenergic Receptor. **Journal of Chemical Information and Modeling** 60 (8), 4064-4075
 +    - H. Wu, Y. Li, G. Liu, H. Liu* and N. Li*. SAS-cam: a program for automatic processing and analysis of small-angle scattering data, **J. Appl. Cryst.** (2020). 53 https://​doi.org/​10.1107/​S1600576720008985
 +    - Y. Shi & H. Liu. EM-detwin: A Program for Resolving Indexing Ambiguity in Serial Crystallography Using the Expectation-Maximization Algorithm, **Crystals**,​ 2020, 10(7), 588; https://​doi.org/​10.3390/​cryst10070588 {{:​research:​ei5058_sascam.pdf|pdf}}
 +    - X. Gao, X. Dong, X. Li, Z. Liu, H. Liu, Prediction of disulfide bond engineering sites using a machine learning method, **Sci. Rep.** 10 (2020) 10330. https://​doi.org/​10.1038/​s41598-020-67230-z.
 +    - P. Wang, L. Liu, A. Liu, L. Yan, Y. He, S. Shen, M. Hu, Y. Guo, H. Liu, C. Liu, Y. Lu, P. Wang, F. Deng, Z. Rao, Z. Lou, Structure of severe fever with thrombocytopenia syndrome virus L protein elucidates the mechanisms of viral transcription initiation, **Nat. Microbiol.** 5 (2020) 864–871. https://​doi.org/​10.1038/​s41564-020-0712-2. ​
 +    - X. Li, C. Li, H. Liu, SPIND-TC: An indexing method for two-color X-ray diffraction data, **Acta Crystallogr. Sect. A Found. Adv.** 76 (2020) 369–375. https://​doi.org/​10.1107/​S2053273320001916.
 +    - A.I. Uba, C. Radicella, C. Readmond, N. Scorese, S. Liao, H. Liu*, C. Wu*, Binding of agonist WAY-267,464 and antagonist WAY-methylated to oxytocin receptor probed by all-atom molecular dynamics simulations,​ **Life Sci.** 252 (2020) 117643. https://​doi.org/​10.1016/​j.lfs.2020.117643.
     - Siyuan Liu, Xilun Xiang, Xiang Gao & Haiguang Liu*, Neighborhood Preference of Amino Acids in Protein Structures and its Applications in Protein Structure Assessment, **Scientific Reports** volume 10, Article number: 4371 (2020) https://​www.nature.com/​articles/​s41598-020-61205-w     - Siyuan Liu, Xilun Xiang, Xiang Gao & Haiguang Liu*, Neighborhood Preference of Amino Acids in Protein Structures and its Applications in Protein Structure Assessment, **Scientific Reports** volume 10, Article number: 4371 (2020) https://​www.nature.com/​articles/​s41598-020-61205-w
-    - Xuanxuan Li, Chufeng Li and Haiguang Liu, SPIND-TC: an indexing method for two-color X-ray diffraction data, **Acta Crystallography A: Foundations & Advances **, http://​journals.iucr.org/​a/​issues/​2020/​03/​00/​ib5084/​index.html 
     - Hao He; Can Liu; Haiguang Liu* Model Reconstruction from Small-Angle X-Ray Scattering Data Using Deep Learning Methods.** iScience** 23(3) 100906 (2020). https://​doi.org/​10.1016/​j.isci.2020.100906     - Hao He; Can Liu; Haiguang Liu* Model Reconstruction from Small-Angle X-Ray Scattering Data Using Deep Learning Methods.** iScience** 23(3) 100906 (2020). https://​doi.org/​10.1016/​j.isci.2020.100906
     - Nass, K., Redecke, L., Perbandt, M. et al. In cellulo crystallization of Trypanosoma brucei IMP dehydrogenase enables the identification of genuine co-factors. **Nat Commun** 11, 620 (2020). https://​doi.org/​10.1038/​s41467-020-14484-w     - Nass, K., Redecke, L., Perbandt, M. et al. In cellulo crystallization of Trypanosoma brucei IMP dehydrogenase enables the identification of genuine co-factors. **Nat Commun** 11, 620 (2020). https://​doi.org/​10.1038/​s41467-020-14484-w
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   - Xuanxuan Li, John C. H. Spence, Brenda G. Hogue*, Haiguang Liu*. Merging single-shot XFEL diffraction data from inorganic nanoparticles:​ a new approach to size and orientation determination. **IUCrJ**, **4**, 741-750 (2017) http://​journals.iucr.org/​m/​issues/​2017/​06/​00/​it5013/​index.html ​   - Xuanxuan Li, John C. H. Spence, Brenda G. Hogue*, Haiguang Liu*. Merging single-shot XFEL diffraction data from inorganic nanoparticles:​ a new approach to size and orientation determination. **IUCrJ**, **4**, 741-750 (2017) http://​journals.iucr.org/​m/​issues/​2017/​06/​00/​it5013/​index.html ​
   - Zhe Guan, Tiantian Cai, Zhongmin Liu, Yunfeng Dou, Xuesong Hu, Peng Zhang, Xin Sun, Hongwei Li, Yao Kuang, Qiran Zhai, Hao Ruan, Xuanxuan Li, Zeyang Li, Qihui Zhu, Jingeng Mai, Qining Wang, Luhua Lai, Jianguo Ji, Haiguang Liu, Bin Xia, Taijiao Jiang, Shu-Jin Luo, Hong-Wei Wang, Can Xie. Origin of the Reflectin Gene and Hierarchical Assembly of Its Protein. **Current Biology**, **27**, 2833-2842. (2017) [[http://​www.sciencedirect.com/​science/​article/​pii/​S096098221730965X]]   - Zhe Guan, Tiantian Cai, Zhongmin Liu, Yunfeng Dou, Xuesong Hu, Peng Zhang, Xin Sun, Hongwei Li, Yao Kuang, Qiran Zhai, Hao Ruan, Xuanxuan Li, Zeyang Li, Qihui Zhu, Jingeng Mai, Qining Wang, Luhua Lai, Jianguo Ji, Haiguang Liu, Bin Xia, Taijiao Jiang, Shu-Jin Luo, Hong-Wei Wang, Can Xie. Origin of the Reflectin Gene and Hierarchical Assembly of Its Protein. **Current Biology**, **27**, 2833-2842. (2017) [[http://​www.sciencedirect.com/​science/​article/​pii/​S096098221730965X]]
-  - Hua T, Vemuri K, Nikas SP, Laprairie RB, Wu Y, Qu L, Pu M, Korde A, Jiang S, Ho JH, Han GW, Ding K, Li X, Liu H, Hanson MA, Zhao S, Bohn LM, Makriyannis A, Stevens RC, Liu ZJ. Crystal structures of agonist-bound human cannabinoid receptor CB1. **Nature** ​ **547**, 468–471 (2017) [[https://​www.nature.com/​nature/​journal/​v547/​n7664/​full/​nature23272.htm]]+  - Hua T, Vemuri K, Nikas SP, Laprairie RB, Wu Y, Qu L, Pu M, Korde A, Jiang S, Ho JH, Han GW, Ding K, Li X, Liu H, Hanson MA, Zhao S, Bohn LM, Makriyannis A, Stevens RC, Liu ZJ. Crystal structures of agonist-bound human cannabinoid receptor CB1. **Nature** ​ **547**, 468–471 (2017) [[https://​www.nature.com/​articles/​nature23272]]
   - Na Song, ..., Haiguang Liu*, SHREC'​17 Track: Protein Shape Retrieval, in Eurographics Workshop on 3D Object Retrieval, editor Ioannis Pratikakis, Florent Dupont, Maks Ovsjanikov. The Eurographics Association. (2017) http://​dx.doi.org/​10.2312/​3dor.20171055 Download {{ :​wiki:​shreck17:​csrc_protein_shrec.pdf | PDF}} version.   - Na Song, ..., Haiguang Liu*, SHREC'​17 Track: Protein Shape Retrieval, in Eurographics Workshop on 3D Object Retrieval, editor Ioannis Pratikakis, Florent Dupont, Maks Ovsjanikov. The Eurographics Association. (2017) http://​dx.doi.org/​10.2312/​3dor.20171055 Download {{ :​wiki:​shreck17:​csrc_protein_shrec.pdf | PDF}} version.
   - Hongxiao Wang, Haiguang Liu. Determining complex structures using docking method with single particle scattering data. **Front. Mol. Biosci**. **4**:23. http://​dx.doi.org/​10.3389/​fmolb.2017.00023 (2017)   - Hongxiao Wang, Haiguang Liu. Determining complex structures using docking method with single particle scattering data. **Front. Mol. Biosci**. **4**:23. http://​dx.doi.org/​10.3389/​fmolb.2017.00023 (2017)

Richard Feynman

“everything that is living can be understood in terms of the jiggling and wiggling of atoms”.

and now, we want to watch atoms jiggling and wiggling.

X-rays, electrons, fluorescence light, the advances of photon sciences, together with computational modeling, are making this happen.