S. Burkhardt, K. Fredriksson, Tuomas Ojamies, J. Ravantti, E. Ukkonen
{"title":"病毒低温电镜密度图中蛋白质的局部近似3D匹配","authors":"S. Burkhardt, K. Fredriksson, Tuomas Ojamies, J. Ravantti, E. Ukkonen","doi":"10.1109/TDPVT.2004.1335422","DOIUrl":null,"url":null,"abstract":"Experimental structure analysis of biological molecules (e.g, proteins) or macromolecular complexes (e.g, viruses) can be used to generate three-dimensional density maps of these entities. Such a density map can be viewed as a three-dimensional gray-scale image where space is subdivided in voxels of a given size. The focus of this paper is the analysis of virus density maps. The hull of a virus consists of many copies of one or several different proteins. An important tool for the study of viruses is cryo-electron microscopy (cryo-EM), a technique with insufficient resolution to directly determine the arrangement of the proteins in the virus. We therefore created a tool that locates proteins in the three-dimensional density map of a virus. The goal is to fully determine the locations and orientations of the protein(s) in the virus given the virus' three-dimensional density map and a database of density maps of one or more protein candidates.","PeriodicalId":191172,"journal":{"name":"Proceedings. 2nd International Symposium on 3D Data Processing, Visualization and Transmission, 2004. 3DPVT 2004.","volume":"8 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2004-09-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Local approximate 3D matching of proteins in viral cryo-EM density maps\",\"authors\":\"S. Burkhardt, K. Fredriksson, Tuomas Ojamies, J. Ravantti, E. Ukkonen\",\"doi\":\"10.1109/TDPVT.2004.1335422\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Experimental structure analysis of biological molecules (e.g, proteins) or macromolecular complexes (e.g, viruses) can be used to generate three-dimensional density maps of these entities. Such a density map can be viewed as a three-dimensional gray-scale image where space is subdivided in voxels of a given size. The focus of this paper is the analysis of virus density maps. The hull of a virus consists of many copies of one or several different proteins. An important tool for the study of viruses is cryo-electron microscopy (cryo-EM), a technique with insufficient resolution to directly determine the arrangement of the proteins in the virus. We therefore created a tool that locates proteins in the three-dimensional density map of a virus. The goal is to fully determine the locations and orientations of the protein(s) in the virus given the virus' three-dimensional density map and a database of density maps of one or more protein candidates.\",\"PeriodicalId\":191172,\"journal\":{\"name\":\"Proceedings. 2nd International Symposium on 3D Data Processing, Visualization and Transmission, 2004. 3DPVT 2004.\",\"volume\":\"8 1\",\"pages\":\"0\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2004-09-06\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Proceedings. 2nd International Symposium on 3D Data Processing, Visualization and Transmission, 2004. 3DPVT 2004.\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.1109/TDPVT.2004.1335422\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Proceedings. 2nd International Symposium on 3D Data Processing, Visualization and Transmission, 2004. 3DPVT 2004.","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1109/TDPVT.2004.1335422","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
Local approximate 3D matching of proteins in viral cryo-EM density maps
Experimental structure analysis of biological molecules (e.g, proteins) or macromolecular complexes (e.g, viruses) can be used to generate three-dimensional density maps of these entities. Such a density map can be viewed as a three-dimensional gray-scale image where space is subdivided in voxels of a given size. The focus of this paper is the analysis of virus density maps. The hull of a virus consists of many copies of one or several different proteins. An important tool for the study of viruses is cryo-electron microscopy (cryo-EM), a technique with insufficient resolution to directly determine the arrangement of the proteins in the virus. We therefore created a tool that locates proteins in the three-dimensional density map of a virus. The goal is to fully determine the locations and orientations of the protein(s) in the virus given the virus' three-dimensional density map and a database of density maps of one or more protein candidates.