2019-05-15 REL RCSB RCSB RCSB 2018-03-02 2018-05-16 2019-01-09 2019-05-15 Subtomogram averages of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells. Galaz-Montoya JG Jin J Sherman MB Jin J Galaz-Montoya JG Sherman MB Sun SY Goldsmith CS O'Toole ET Ackerman L Carlson LA Weaver SC Chiu W Simmons G Neutralizing Antibodies Inhibit Chikungunya Virus Budding at the Plasma Membrane. Cell Host Microbe US 24 417 428.e5 2018 30146390 doi:10.1016/j.chom.2018.07.018 1934-6069 EMD-7513 other EM volume
Mature CHIKV virion subtomogram average
 EMD-7515 associated EM volume Budding-arrestedChikungunya virus nucleocapsid-like particle Chikungunya virus 0 Chikungunya virus 181/clone 25 Homo sapiens 698.0 4 VIRION STRAIN true false subtomogramAveraging cell 7.0 ETHANE
Neutralizing antibody treated U2OS cells that were infected with CHIKV vaccine strain 181/clone 25
 JEOL 2200FS OTHER BRIGHT FIELD FIELD EMISSION GUN 200 In-column Omega Filter 0 20 DIRECT ELECTRON DE-20 (5k x 3k) 0.6 1.0 1
IMOD was used to align the tiltseries. ICON-GPU was used to reconstruct the aligned tiltseries into tomograms.
5 C1 36.0 FSC 0.143 CUT-OFF EMAN2 2.21 378 20 1163 EMAN2 2.21 EMAN2 2.21
Not all images were CTF corrected; only those images and those tiltseries with clear CTF ripples in the power spectrum.
 11 63.0
Of 1163 extracted NCLP subtomograms, 763 were classified by size deriving their radius from radial density profile plots computed from spherically averaged subtomograms. Of these, 378 were part of the final 5 converging averages uploaded to the EMDB.
 OTHER EMAN2 2.21
Initial models were created (reference-free, symmetry-free) using hierarchical ascendant classification. NCLPs within different size classes were iteratively refined until convergence (gold-standard, symmetry-free).
 emd_7515.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -919 -919 -29 128 128 128 916.48 916.48 916.48 90.0 90.0 90.0 X Y Z -1.130406 10.189989000000001 0.17448513 0.8805925 7.16 7.16 7.16 2.0 AUTHOR Subtomogram average of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells. emd_7515_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -919 -919 -29 128 128 128 916.48 916.48 916.48 90.0 90.0 90.0 X Y Z -0.9264094 10.351547 0.17234544 0.89672935 7.16 7.16 7.16 AUTHOR Subtomogram average of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells. emd_7515_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -919 -919 -29 128 128 128 916.48 916.48 916.48 90.0 90.0 90.0 X Y Z -1.3294802 9.253072 0.18415153 0.9045499 7.16 7.16 7.16 AUTHOR Subtomogram average of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells. emd_7515_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -919 -919 -29 128 128 128 916.48 916.48 916.48 90.0 90.0 90.0 X Y Z -1.2356979 9.0386715 0.18798386 0.89306235 7.16 7.16 7.16 AUTHOR Subtomogram average of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells. emd_7515_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 -919 -919 -29 128 128 128 916.48 916.48 916.48 90.0 90.0 90.0 X Y Z -0.7725351 9.504961 0.19383024 0.9087776 7.16 7.16 7.16 AUTHOR Subtomogram average of budding-arrested nucleocapsid-like particles (NCLPs) inside CHIKV-infected human cells.