REL PDBe PDBe PDBe 2011-02-15 2011-02-21 2011-10-12 2011-10-12 Structural basis of substrate shuttling in bovine mitochondrial supercomplex I1III2IV1 by single particle cryo-EM Althoff T Mills DJ Popot J-L Kuehlbrandt W Supercomplex B, mitochondria, respiratory chain, complex I, complex III, complex IV, amphipol A8-35, random conical tilt Althoff T Mills DJ Popot J-L Kuehlbrandt W Arrangement of electron transport chain components in bovine mitochondrial supercomplex I1III2IV1. EMBO J. 30 4652 4664 2011 21909073 doi:10.1038/emboj.2011.324 Althoff T Thesis Strukturelle Untersuchungen am Superkomplex I1III2IV1 der Atmungskette mittels Kryoelektronenmikroskopie Strukturelle Untersuchungen am Superkomplex I1III2IV1 der Atmungskette mittels Kryoelektronenmikroskopie n/a Johann Wolfgang Goethe Universitaet Frankfurt am Main (Germany) 1 251 2011 2ybb FULLOVERLAP Respiratory supercomplex B (I1III2IV1) composed of complex I, dimeric complex III and complex IV from bovine heart mitochondria Respiratory supercomplex B (I1III2IV1) composed of complex I, dimeric complex III and complex IV from bovine heart mitochondria
The supercomplexes were kept soluble by amphipol A8-35
A monomer of complex I assembles with a dimer of complex III and a monomer of complex IV 4 1.7 NADH-dehydrogenase Bos taurus Cattle Heart Muscle Mitochondrion Inner mitochondrial membrane 0.98 0.98 1 Monomer false Cytochrome c reductase Bos taurus Cattle Heart Muscle Mitochondrion Inner mitochondrial membrane 0.243 0.241 2 Dimer false Cytochrome c oxidase Bos taurus Cattle Heart Muscle Mitochondrion Inner mitochondrial membrane 0.207 0.204 1 Monomer false Cytochrome c Bos taurus Cattle Heart Muscle Mitochondrion Inner mitochondrial membrane 0.012 0.012 1 Monomer false singleParticle particle 0.3 7.7
10 mM KCl, 15 mM HEPES, residual trehalose
Continuous carbon 400 mesh copper grid
 ETHANE 70 95 HOMEMADE PLUNGER
Vitrification instrument: Custom-made hand plunger. Sample was adsorbed to carbon film for 30 seconds before blotting
One-sided blotting for 26 - 30 seconds before plunging FEI POLARA 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.0 0.5 6.0 59000.0 58829.0 GATAN LIQUID NITROGEN 78 95 78 Objective lens astigmatism was corrected at 200,000 x magnification Beam tilt was corrected by adjusting pivot points
Low dose conditions. For random conical tilt each area was imaged twice with the first image taken at a tilt angle of -45 or -50 degree
KODAK SO-163 FILM ZEISS SCAI 7 154 25
Scanned images were binned to 2.38 Angstroms per pixel in IMAGIC
0.7 8. FEI Polara MSC -50 0
Tilt pairs of particles were selected interactively in JWEB
Phase-flippping on each particle
 C1 OTHER 19.0 FSC 0.143 CUT-OFF SPIDER, IMAGIC
Final map was calculated from combined tilted and untilted datasets with 10684 projections each and omitting 30 per cent of images with lowest cross correlation coefficient using SIRT
10684
SPIDER: theta 360 degrees, phi 360 degrees
 emd_1876.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 112 112 112 -56 -56 -55 112 112 112 533.12 533.12 533.12 90 90 90 Y X Z -8.248889999999999 18.839099999999998 -0.00000000106836 1.0 4.76 4.76 4.76 1.3 AUTHOR 3D cryo-EM map of supercomplex B (I1III2IV1) from bovine heart mitochondria
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 3M9S RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Only one monomer from the asymmetric unit was used. Docking was done manually according to detailed map features
REAL 3IAM RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Only one monomer from the asymmetric unit was used. Docking was done manually according to detailed map features. Gave better fit than
REAL 3M9C RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Docking was done manually according to detailed map features
REAL 1PP9 RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Docking was done manually according to detailed map features
REAL 1BGY K W RIGID BODY FIT UCSF Chimera
PDBEntryID_givenInChain. Protocol: Rigid Body. Structure was aligned to PDB 1PP9 with Chimera MatchMaker
REAL 3CX5 RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Structure was aligned to PDB 1PP9 with Chimera MatchMaker
REAL 2BCC RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Used for comparison of the conformation of the Rieske-domain. Structure was aligned to PDB 1PP9 with Chimera MatchMaker
REAL 1OCC RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Only one monomer from the asymmetric unit was used. Docking was done manually according to detailed map features
REAL 2B4Z RIGID BODY FIT UCSF Chimera
Protocol: Rigid Body. Structure was aligned to cytochrome c (chain W) in PDB 3CX5 with Chimera Matchmaker
REAL