REL PDBe PDBe PDBe 2016-05-11 2016-06-15 2017-07-26 2017-07-26 Single-particle cryo-EM using alignment by classification (ABC):Lumbricus terrestris hemoglobin at near-atomic resolution Afanasyev P Linnemayr-Seer C Ravelli RBG Matadeen R De Carlo S Alewijnse B Portugal RV Pannu NS Schatz M van Heel M Lumbricus terrestris, hemoglobin, oxygen carrier, erythrocruorin Afanasyev P Linnemayr-Seer C Ravelli RBG Matadeen R De Carlo S Alewijnse B Portugal RV Pannu NS Schatz M van Heel M Single-particle cryo-EM using alignment by classification (ABC): Lumbricus terrestris hemoglobin at near-atomic resolution To Be Published 5m3l FULLOVERLAP Hemoglobin purified from Lumbricus Terrestris Hemoglobin purified from Lumbricus Terrestris Dodecamer 1 3.6 Hemoglobin Lumbricus terrestris Common Earthworm hemolymph 3.6 12 Dodecamer false singleParticle particle 7.0
0.1 M Tris-HCl buffer, 1 mM EDTA
Quantifoil grid (R2/2, Quantifoil Micro Tools GmbH)
 ETHANE 100 FEI VITROBOT MARK IV 2.5 s blot time FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.02 1.0 1.2 59000.0 FEI TITAN KRIOS AUTOGRID HOLDER 2014-05-25 FEI FALCON II (4k x 4k) 5235 40 16.
Reference-free Alignment By Classification (ABC-4D). Camera correction, CTF determination, particle-picking, MSA unsupervised classification, 3D reconstruction, all in IMAGIC-4D.
Phase flipping of micrograph patches (ctf2d-find)
 D6 OTHER 3.8 OTHER Imagic-4D 85000
Imagic D6 asymmetric triangle: 0<Beta<90; -30<Gamma<+30. Anisotropic distribution of top-views and side views (see manuscript)
 85000 emd_3434.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 -180 -180 -180 360 360 360 399.6 399.6 399.6 90.0 90.0 90.0 X Y Z -6.93016148 10.0 -0.00004977 0.51959878 1.11 1.11 1.11 1.6 AUTHOR Worm hemoglobin cryo-EM 3D reconstruction sharpened and auto-masked
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 2GTL RIGID BODY FIT Chimera REAL
emd_3434.tif
emd_3434_msk_1.map emd_3434_msk_1.map 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 -180 -180 -180 360 360 360 399.6 399.6 399.6 90.0 90.0 90.0 X Y Z 0.0 1.0 0.17990942 0.384112 1.11 1.11 1.11 Automatic mask applied to final 3D reconstruction
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 emd_3434_fsc.xml