SAXS Core

SAXS核心设施的任务是为CCR首席研究员（pi）、NIH校内pi和校外学术研究小组/实验室的研究项目提供支持。支持包括提供APS PUP SAXS/WAXS光束线和内部SAXS仪器的常规访问，以及实验设计、数据收集、处理、分析和解释方面的专业知识。我们的主要重点是确定生物大分子及其复合物在溶液中的结构。研究领域包括但不限于核酸、蛋白质、蛋白质组件、病毒颗粒、脂质膜、蛋白质/DNA和蛋白质/RNA复合物的结构研究。在本次审查期间使用了SAXS核心服务的出版物如下：2019年7月至2020年7月期间的SAXS核心出版物清单1。张艳，张艳，刘志勇，程明良，马军，王艳，秦春芳，方鑫，长非编码亚基因组黄病毒rna具有扩展的三维结构和在溶液中的柔性。EMBO Rep 20, e47016, doi:10.15252/ ember .201847016(2019)。PMID: 31502753;Pmcid: pmc6832101Yonkunas， M. J. & Baird， N. J.在三联体形成之前，采用了高度有序的非保护性MALAT1 ENE结构。RNA 25, 975-984, doi:10.1261/ RNA .069906.118（2019）。Pmid: 31113838, Pmid: pmc6633196宋慧，季霞。DEAD-box解旋酶DDX3X对RNA双工识别和解旋的机制。学报10,3085-3093,doi:10.1038/s41467-019-11083-2（2019）。PMID: 31300642;Pmcid: pmc6626043宋慧，达玛西娜，M. N，王聪，肖，桂祥，Cherry， S, Tropea， J. E, Jin， D. J. & Ji， X.大肠杆菌和幽门螺杆菌PPX/GppA同源物的结构和活性。Febs J, doi:10.1111/ Febs .15120(2019)。PMID: 31679177;Pmcid：无5.单击“确定”。Martin， J. E, Le， M. T, Bhattarai， N., Capdevila， D. A., Shen， J. C, Winkler， M. E.和Giedroc， D. P.一种mn感应核糖体开关激活链球菌中Mn2+/Ca2+ atp酶转运体的表达。核酸研究47,6885-6899,doi:10.1093/nar/gkz494（2019）。PMID: 31165873;Pmcid: pmc6649816李，S., Su， Z., Lehmann， J., Stamatopoulou， V., Giarimoglou， N., Henderson， F. E., Fan， L., Pintilie， G. D., Zhang， K., Chen， M., Ludtke， S. J., Wang, yx ., Stathopoulos， C., Chiu， W.和Zhang， J.高阶tRNA-mRNA相互作用的氨基酸监测结构基础。中华生物医学工程学报，2016,33 (4):559 - 559,doi: 10.3969 / j.i ssn . 1001 - 52009.05.011。PMID: 31740854;Pmcid: pmc6899168Kim， S. K, Whitley， M. J, Krzysiak， T. C, Hinck， C. S., Taylor， A. B., Zwieb， C., Byeon， C. H., Zhou， X., Mendoza， V., Lopez-Casillas， F., Furey， W. & Hinck， A. P.在其Orphan Domain中产生β多糖的结构适应与生长因子结合的替代模式相对于内酰胺。结构27,1427-1442 e1424, doi:10.1016/j.str.2019.06.010（2019）。PMID: 31327662;Pmcid: pmc67265038。Kaustov， L., Lemak， A., Wu， H., Faini， M., Fan， L., Fang， X., Zeng， H., Duan， S., Allali-Hassani， A., Li， F., Wei， Y., Vedadi， M., Aebersold， R., Wang， Y., Houliston， S. & Arrowsmith， C. H. MLL1三聚体催化配合物是一个由多个弱相互作用稳定的动态构象集合。核酸学报，47,9433-9447,doi:10.1093/nar/gkz697（2019）。PMID: 31400120;Pmcid: pmc6755125Tauber， M., Kreuz， S., Lemak， A., Mandal， P., Yerkesh， Z., Veluchamy， A., Al-Gashgari， B., Aljahani， A., cortesmedina, l.v., Azhibek， D., Fan， L., Ong, m.s ., Duan， S., Houliston， S., Arrowsmith, c.h.和Fischle， W.选择性剪接和变构调节UHRF1的染色质结合。核酸研究，gkaa520, doi:10.1093/nar/gkaa520（2020）。pmi: 32609811宋慧，达玛西娜，M. N，王聪，肖，桂祥，Cherry， S, Tropea， J. E, Jin， D. J. & Ji， X.大肠杆菌和幽门螺杆菌PPX/GppA同源物的结构和活性。[J] .中国科学：自然科学版，2015,(5):1088 - 1088(2020)。数字：31679177Shin， J. H., Sulpizio， A. G., Kelley， A., Alvarez， L., Murphy， S. G., Fan， L., Cava， F., Mao， Y., Saper， M. A.和Dorr， T.肽聚糖内肽酶调控的结构基础。美国科学学报，17,11692-11702,doi:10.1073/pnas.2001661117(2020)。PMID: 32393643;Pmcid: pmc7261138Ray， A., Edmonds， K. A., Palmer， L. D., Skaar， E. P.和Giedroc， D. P.，金黄色葡萄球菌葡萄糖诱导的生物膜辅助蛋白A （GbaA）是一种单硫醇依赖的亲电传感器。Biochemistry-Us, doi: 10.1021 / acs.biochem。0 c00347(2020)。数字：32697076貂,我们,J . M R, Ronzetti, M,包蒂斯塔,W,诺特,Z, Abisoye-Ogunniyan, A。,,D,卡尔沃,R, Dashnyam, M,辛格,吉林,T,白色,J。,Ravichandran,年代,库马尔,P, Talsania, K,陈,V, Ghebremedhin, A。,Karanam, B。,本•萨拉姆。,阿明,R, Odzorig, T。艾肯,T,阮,V,扁,Y。,Zarif, J . C。de Groot, A . E。梅赫塔米,风扇,L。,,X。,Simeonov, A。,脑袋,N, Abu-Asab, M,费雷尔,M,索思豪尔,N,内涵,Y。,赵,Y。,洛佩兹,H,科兹洛夫,年代,德瓦尔,N,耶茨,C. C., Baljinnyam， B., Marugan， J. & Rudloff， U.甘露糖受体（CD206）在肿瘤相关巨噬细胞中的激活增强了适应性和先天抗肿瘤免疫反应。科学转化医学12，doi:10.1126/scitranslmed。Aax 6337（2020）。id: 32051227Hauseman， Z. J, Harvey， E. P, Newman， C. E, Wales， T. E, Bucci， J. C, Mintseris， J., Schweppe， D. K., David， L., Fan， L., Cohen， D. T., Herce， H. D., Mourtada， R., Ben-Nun， Y., Bloch， N. B., Hansen， S. B., Wu， H., Gygi， S. P., Engen， J. R.和Walensky， L.。分子细胞学报，38 -83,doi:10.1016/j.molcel.2020.05.029（2020）。15.数字：32533918；陈明荣，潘辉，孙丽芳，石鹏，张玉坤，李磊，黄永祥，陈建辉，蒋鹏，方晓燕，吴春燕，陈振昌，人上皮细胞转化2蛋白的结构与调控。美国科学学报（自然科学版）17,1027-1035,doi:10.1073/pnas.1913054117（2020） id: 31888991；PMCID: PMC6969500

The mission of the SAXS Core facility is to provide support to research projects from CCR principal investigators (PIs), NIH intramural PIs, and extramural academic research groups/laboratories. The support includes providing routine access to the APS PUP SAXS/WAXS beamline and in-house SAXS instrument, and expertise in experimental design, data collection, processing, analysis, and interpretation. Our main focus is to determine the structure of biomacromolecules and their complexes in solution. The research field includes but not limited to structural studies of nucleic acids, proteins, protein assemblies, virus particles, lipid membranes, protein/DNA, and protein/RNA complexes. The publications that have used the SAXS Core services for this review period are the following: Publication list of SAXS Core in period of July 2019- July 2020 1. Zhang, Y., Zhang, Y., Liu, Z. Y., Cheng, M. L., Ma, J., Wang, Y., Qin, C. F. & Fang, X. Long non-coding subgenomic flavivirus RNAs have extended 3D structures and are flexible in solution. EMBO Rep 20, e47016, doi:10.15252/embr.201847016 (2019). PMID: 31502753; PMCID: PMC6832101 2. Yonkunas, M. J. & Baird, N. J. A highly ordered, nonprotective MALAT1 ENE structure is adopted prior to triplex formation. RNA 25, 975-984, doi:10.1261/rna.069906.118 (2019). PMID: 31113838, PMCID: PMC6633196 3. Song, H. & Ji, X. The mechanism of RNA duplex recognition and unwinding by DEAD-box helicase DDX3X. Nat Commun 10, 3085-3093, doi:10.1038/s41467-019-11083-2 (2019). PMID: 31300642; PMCID: PMC6626043 4. Song, H., Dharmasena, M. N., Wang, C., Shaw, G. X., Cherry, S., Tropea, J. E., Jin, D. J. & Ji, X. Structure and activity of PPX/GppA homologs from Escherichia coli and Helicobacter pylori. Febs J, doi:10.1111/febs.15120 (2019). PMID: 31679177; PMCID: N/A 5. Martin, J. E., Le, M. T., Bhattarai, N., Capdevila, D. A., Shen, J. C., Winkler, M. E. & Giedroc, D. P. A Mn-sensing riboswitch activates expression of a Mn2+/Ca2+ ATPase transporter in Streptococcus. Nucleic Acids Research 47, 6885-6899, doi:10.1093/nar/gkz494 (2019). PMID: 31165873;PMCID: PMC6649816 6. Li, S., Su, Z., Lehmann, J., Stamatopoulou, V., Giarimoglou, N., Henderson, F. E., Fan, L., Pintilie, G. D., Zhang, K., Chen, M., Ludtke, S. J., Wang, Y. X., Stathopoulos, C., Chiu, W. & Zhang, J. Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions. Nat Struct Mol Biol 26, 1094-1105, doi:10.1038/s41594-019-0326-7 (2019). PMID: 31740854;PMCID: PMC6899168 7. Kim, S. K., Whitley, M. J., Krzysiak, T. C., Hinck, C. S., Taylor, A. B., Zwieb, C., Byeon, C. H., Zhou, X., Mendoza, V., Lopez-Casillas, F., Furey, W. & Hinck, A. P. Structural Adaptation in Its Orphan Domain Engenders Betaglycan with an Alternate Mode of Growth Factor Binding Relative to Endoglin. Structure 27, 1427-1442 e1424, doi:10.1016/j.str.2019.06.010 (2019). PMID: 31327662;PMCID: PMC6726503 8. Kaustov, L., Lemak, A., Wu, H., Faini, M., Fan, L., Fang, X., Zeng, H., Duan, S., Allali-Hassani, A., Li, F., Wei, Y., Vedadi, M., Aebersold, R., Wang, Y., Houliston, S. & Arrowsmith, C. H. The MLL1 trimeric catalytic complex is a dynamic conformational ensemble stabilized by multiple weak interactions. Nucleic Acids Res 47, 9433-9447, doi:10.1093/nar/gkz697 (2019). PMID: 31400120; PMCID: PMC6755125 9. Tauber, M., Kreuz, S., Lemak, A., Mandal, P., Yerkesh, Z., Veluchamy, A., Al-Gashgari, B., Aljahani, A., Cortes-Medina, L. V., Azhibek, D., Fan, L., Ong, M. S., Duan, S., Houliston, S., Arrowsmith, C. H. & Fischle, W. Alternative splicing and allosteric regulation modulate the chromatin binding of UHRF1. Nucleic Acids Res, gkaa520, doi:10.1093/nar/gkaa520 (2020). PMID: 32609811 10. Song, H., Dharmasena, M. N., Wang, C., Shaw, G. X., Cherry, S., Tropea, J. E., Jin, D. J. & Ji, X. Structure and activity of PPX/GppA homologs from Escherichia coli and Helicobacter pylori. Febs J 287, 1865-1885, doi:10.1111/febs.15120 (2020). PMID: 31679177 11. Shin, J. H., Sulpizio, A. G., Kelley, A., Alvarez, L., Murphy, S. G., Fan, L., Cava, F., Mao, Y., Saper, M. A. & Dorr, T. Structural basis of peptidoglycan endopeptidase regulation. Proc Natl Acad Sci USA 117, 11692-11702, doi:10.1073/pnas.2001661117 (2020). PMID: 32393643; PMCID: PMC7261138 12. Ray, A., Edmonds, K. A., Palmer, L. D., Skaar, E. P. & Giedroc, D. P. Staphylococcus aureus glucose-induced biofilm accessory protein A (GbaA) is a monothiol-dependent electrophile sensor. Biochemistry-Us, doi:10.1021/acs.biochem.0c00347 (2020). PMID: 32697076 13. Jaynes, J. M., Sable, R., Ronzetti, M., Bautista, W., Knotts, Z., Abisoye-Ogunniyan, A., Li, D., Calvo, R., Dashnyam, M., Singh, A., Guerin, T., White, J., Ravichandran, S., Kumar, P., Talsania, K., Chen, V., Ghebremedhin, A., Karanam, B., Bin Salam, A., Amin, R., Odzorig, T., Aiken, T., Nguyen, V., Bian, Y., Zarif, J. C., de Groot, A. E., Mehta, M., Fan, L., Hu, X., Simeonov, A., Pate, N., Abu-Asab, M., Ferrer, M., Southall, N., Ock, C. Y., Zhao, Y., Lopez, H., Kozlov, S., de Val, N., Yates, C. C., Baljinnyam, B., Marugan, J. & Rudloff, U. Mannose receptor (CD206) activation in tumor-associated macrophages enhances adaptive and innate antitumor immune responses. Sci Transl Med 12, doi:10.1126/scitranslmed.aax 6337 (2020). PMID: 32051227 14. Hauseman, Z. J., Harvey, E. P., Newman, C. E., Wales, T. E., Bucci, J. C., Mintseris, J., Schweppe, D. K., David, L., Fan, L., Cohen, D. T., Herce, H. D., Mourtada, R., Ben-Nun, Y., Bloch, N. B., Hansen, S. B., Wu, H., Gygi, S. P., Engen, J. R. & Walensky, L. D. Homogeneous Oligomers of Pro-apoptotic BAX Reveal Structural Determinants of Mitochondrial Membrane Permeabilization. Mol Cell 79, 68-83 e67, doi:10.1016/j.molcel.2020.05.029 (2020). PMID: 32533918 15. Chen, M. R., Pan, H., Sun, L. F., Shi, P., Zhang, Y. K., Li, L., Huang, Y. X., Chen, J. H., Jiang, P., Fang, X. Y., Wu, C. Y. & Chen, Z. C. Structure and regulation of human epithelial cell transforming 2 protein. Proc Natl Acad Sci USA 117, 1027-1035, doi:10.1073/pnas.1913054117 (2020) PMID: 31888991; PMCID: PMC6969500