REL PDBe PDBe PDBe 2011-01-20 2011-02-04 2011-02-04 2011-02-04 Visualization of a missing link in retrovirus capsid assembly Cardone G Purdy JG Cheng N Craven RC Steven AC Retrovirus,Capsid,Icosahedral Cardone G Purdy JG Cheng N Craven RC Steven AC Visualization of a missing link in retrovirus capsid assembly. NATURE 457 694 698 2009 19194444 doi:10.1038/nature07724 Icosahedral assembly of Rous sarcoma virus capsid proteins Icosahedral assembly of Rous sarcoma virus capsid proteins 60 capsid protein subunits form 12 pentamers 1 1.53 Avian leukosis virus capsid protein Avian leukosis virus Prague C 1.53 60 Icosahedral composed of 12 pentamers true Escherichia coli pET-24 singleParticle particle 2 7.5
10 mM Tris-HCl, 75 mM NaCl, 0.05 mM ETDA, 0.5 M NaPO4
Holey carbon film on 400 mesh gold grid
 ETHANE 93.15 LEICA KF80
Vitrification instrument: Reichert-Jung KF80 plunger. Vitrification carried out in nitrogen atmosphere
4.5 microliter sample dropped onto grid, blotted on one side for 1 second, then plunged FEI/PHILIPS CM200FEG FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 120 2.0 1.0 1.5 50000.0 GATAN LIQUID NITROGEN 88.15 98.15 93.15 KODAK SO-163 FILM NIKON SUPER COOLSCAN 9000 6.35 6 14 4.8 16. Eucentric
Each particle, phase reversal and baseline subtraction
 I 10.4 FSC 0.5 CUT-OFF EMAN, Bsoft, PFT2, EM3DR2
Particles were classified using EMAN and initial template generated using 3-fold class average. Preprocessing was done using Bsoft. For orientation assignment and 3D reconstruction PFT2 and EM3DR2 were used, repsectively
1478 emd_1862.map.gz 1 IMAGE STORED AS SIGNED INTEGER (2 BYTES) 255 255 255 -127 -127 -127 255 255 255 323.85 323.85 323.85 90 90 90 X Y Z -17762.0 15003.0 -5999.890000000000327 3146.550000000000182 1.27 1.27 1.27 297.0 AUTHOR Icosahedral assembly of Rous sarcoma virus capsid proteins
::::EMDATABANK.org::::EMD-1862::::
 1EM9 A RIGID BODY FIT SITUS
PDBEntryID_givenInChain. Protocol: Rigid Body. The NTD domain was fitted automatically using colores
Laplacian correlation RECIPROCAL 1D1D A RIGID BODY FIT SITUS
PDBEntryID_givenInChain. Protocol: Rigid Body. The CTD domain (aa 152-230) was extracted and fitted using colacor. Model 14 was selected as the best fit.
Laplacian correlation RECIPROCAL
emd_1862.png