REL PDBe PDBe PDBe 2012-12-01 2013-01-09 2013-10-16 2013-10-16 Electron cyro-microscopy helical reconstruction of Par-3 N-terminal domain Yan Z Wenjuan W Jia C Kai Z Feng G Weimin G Mingjie Z Fei S Wei F cell polarity, DUF3534 domain, self-association Zhang Y Wang W Chen J Zhang K Gao F Gao B Zhang S Dong M Besenbacher F Gong W Zhang M Sun F Feng W Structural insights into the intrinsic self-assembly of Par-3 N-terminal domain. STRUCTURE 21 997 1006 2013 23643951 doi:10.1016/j.str.2013.04.004 3zee FULLOVERLAP Par-3 N-terminal DUF3534 domain Par-3 N-terminal DUF3534 domain helical filament assembly 95 0.938 Par-3 N-terminal DUF3534 domain Rattus norvegicus Norway Rat 0.938 95 helical filament assembly true Escherichia coli pET32a helical filament 2.0 8.0
50 mM Tris, 100 mM NaCl, 1 mM DTT and 1 mM EDTA
300-mesh GiGTM holy carbon grid
 ETHANE 100 FEI VITROBOT MARK IV blotted 3.0 s with a blot force 3 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 -1.8 -2.5 96000.0 FEI TITAN KRIOS AUTOGRID HOLDER 85 objective lens astigmatism was corrected at 96,000 times magnification 0 2010-12-01 GATAN ULTRASCAN 4000 (4k x 4k) 6460 20
The images were automatically collected by using leginon system.
32. Liquid nitrogen cooled 0 0
The initial model was obtained IHRSR. Then particles were aligned using EMAN1.
3.53 43.84 C1 OTHER 6.1 OTHER Spider, EMAN1
The resolution was assessed by splitting original particles set into two halves and comparing two independent reconstructions. The final map was reconstructed by using the whole set.
each image
Euler angle system in EMAN1
 emd_2237.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 -180 -180 -180 360 360 360 335.88 335.88 335.88 90.0 90.0 90.0 X Y Z -12.060205460000001 18.52397728 0.0 1.26795149 0.933 0.933 0.933 5.2 AUTHOR Reconstruction of Par3NTD
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 4I6P A B FLEXIBLE FIT Chimera and NAMD2
Protocol: Rigid body fitting first and then molecular dynamics flexible fitting. Crystal structure of the monomer was docked as a rigid body into the cryoEM map using UCSF Chimera and applied with the helical symmetry to build the initial model. Then the structural model was solvated in a box of water molecules with 150 mM NaCl in VMD, using 15 angstrom of padding in all directions. Extra ions were added to neutralize the systems. The simulations were performed with program NAMD 2.8, using the CHARMM27 force field with CMAP corrections. All the fitting procedure is the same as the application of symmetry-restrained MDFF to chaperonin reported previously.
cross correlation coefficient REAL
emd_2237.tif