REL RCSB RCSB RCSB 2013-01-09 2013-01-23 2013-04-10 2013-05-01 Standard asymmetric reconstruction (map 2/8): Visualization of Uncorrelated Tandem Symmetry Mismatches in the Internal Genome Packaging Apparatus of a dsDNA virus Guo F Liu Z Vago F Ren Y Wu W Wright E Serwer P Jiang W bacteriophage T7, procapsid, DNA packaging, portal, core stack, symmetry mismatch, focused asymmetric reconstruction, combinatorial assembly isomerism Guo F Liu Z Vago F Ren Y Wu W Wright ET Serwer P Jiang W Visualization of uncorrelated, tandem symmetry mismatches in the internal genome packaging apparatus of bacteriophage T7. PROC.NAT.ACAD.SCI.USA 110 6811 6816 2013 23580619 doi:10.1073/pnas.1215563110 EMD-5566 FULLOVERLAP EMD-5568 FULLOVERLAP EMD-5569 FULLOVERLAP EMD-5570 FULLOVERLAP EMD-5571 FULLOVERLAP EMD-5572 FULLOVERLAP EMD-5573 FULLOVERLAP Bacteriophage T710A capsid I Bacteriophage T710A capsid I 6 gp14 Enterobacteria phage T7 T710A phage T7 0.021
core stack protein
12 dodecamer false P03724 gp15 Enterobacteria phage T7 T710A phage T7 0.084
core stack protein
8 octamer false P03725 gp16 Enterobacteria phage T7 T710A phage T7 0.144
core stack protein
4 tetramer false P03726 gp8 Enterobacteria phage T7 T710A phage T7 0.059
connector/portal
12 dodecamer false P03728 gp10A Enterobacteria phage T7 T710A phage T7 0.036
major capsid protein. The correct copy number is 415.
icosahedral (T=7) false P19726 gp9 Enterobacteria phage T7 T710A phage T7 0.034
scaffolding protein
false P03716 singleParticle particle 7.4
200 mM NaCl, 10 mM Tris-HCl, 1 mM MgCl2
Ted Pella 01824, Ultrathin Carbon Film on Holey Carbon Support Film, 400 mesh, Copper
 ETHANE 100 120 FEI VITROBOT MARK I Blot for 2 seconds before plunging FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 0.8 4.5 59000.0 57727.0 FEI TITAN KRIOS AUTOGRID HOLDER 80 105 100 Objective lens astigmatism was corrected at 120,000 times magnification
Parallel beam illumination
2010-09-22 KODAK SO-163 FILM NIKON SUPER COOLSCAN 9000 6.35 1270 25 0.6 16. FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 0.8 4.5 59000.0 57727.0 FEI TITAN KRIOS AUTOGRID HOLDER 80 105 100 Objective lens astigmatism was corrected at 120,000 times magnification
Parallel beam illumination
2010-11-05 KODAK SO-163 FILM NIKON SUPER COOLSCAN 9000 6.35 1270 25 0.6 16.
The particles were selected automatically by the ethan method and then by manual screening with the EMAN boxer program. CTF parameters were determined automatically using fitctf2.py and then visually validated using EMAN ctfit program. For 3-D reconstructions, the images were first binned 4x to make initial reconstructions. After alignment parameters and reconstructions converged, the 2x binned images were used for final reconstructions with a sampling of 2.2 A/pixel.
phase flipping and amplitude weighted; per particle
 OTHER 17.0 OTHER jspr, EMAN2, EMAN
This is the SAR map of a serials of 8 maps (Icos, SAR, FAR-I to FAR-VI). Only the major capsid protein gp10 and the core stack protein gp15 are resolved. All other proteins (gp9, gp8, gp14/16) are smeared.
12360 emd_5567.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 -180 -180 -180 360 360 360 792.0 792.0 792.0 90.0 90.0 90.0 X Y Z -10.284966470000001 21.126714710000002 0.62620193 2.0911839 2.20 2.20 2.20 4.5 AUTHOR Standard asymmetric reconstruction of bacteriophage T710A capsid I state. Display section view z=160 for core protein gp15.
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