REL PDBe PDBe PDBe 2005-02-17 2005-04-05 2005-04-26 2012-11-07 Conservation of the capsid structure in tailed dsDNA bacteriophages: the pseudoatomic structure of phi29. Morais MC Choi KH Koti JS Chipman PR Anderson DL Rossmann MG Morais MC Choi KH Koti JS Chipman PR Anderson DL Rossmann MG Conservation of the capsid structure in tailed dsDNA bacteriophages: the pseudoatomic structure of phi29. MOLECULAR CELL 18 149 159 2005 15837419 doi:10.1016/j.molcel.2005.03.013 1yxn FULLOVERLAP phi29 fiberless isometric particle phi29 fiberless isometric particle particle forms an T3 icosahedron 1 8.97 Bacillus phage phi29 Bacillus phage phi29 Bacillus subtilis BACTERIA(EUBACTERIA) 8.97 425 3 VIRUS-LIKE PARTICLE SPECIES false true phi29 singleParticle particle 7.8
25 mM Tris-HCl 5 mM MgCl2 50 mM NaCl 5 mM sodium azide
 ETHANE HOMEMADE PLUNGER FEI/PHILIPS CM200FEG FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.0 0.7 3.0 38000.0 GATAN LIQUID NITROGEN 90.0 0.0 KODAK SO-163 FILM ZEISS SCAI 7 15 20 8. Side entry liquid nitrogen-cooled cryo specimen holder 0.0 0.0
CTF correction included phase and amplitude correction for whole micrographs
 I OTHER 7.9 FSC 0.5 CUT-OFF EMPFT, POR, P3DR 5922 emd_1120.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 281 281 281 -140 -140 -140 281 281 281 517.04 517.04 517.04 90 90 90 Y X Z -7.0043 18.995999999999999 0.558723 3.64087 1.84 1.84 1.84 10.0 This map is a 3D cryo-EM reconstruction of a fiberless, isometric variant of bacteriophage phi29.
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 RIGID BODY FIT SITUS and EMFIT
Protocol: Rigid Body. The fitted molecule consists of two domains, an HK97-like domain and a bacterial immunoglobulin group 2-like domain (BIG2). The two domains were fitted separately.
correlation of laplacian filtered data for SITUS, and for EMFIT, target maximizes positive density around an atom, minimizes negative density, and minimizes clashes with neighboring olecules REAL