2020-11-25 REL PDBe PDBe PDBe 2019-07-31 2019-10-16 2019-10-16 2020-11-25 Max Planck Society Germany German Research Foundation SFB1035 Germany European Research Council 615984 Germany Cryo-EM structure of the ClpXP1/2 protein degradation machinery Gatsogiannis C Merino F Raunser S Gatsogiannis C Balogh D Merino F Sieber SA Raunser S Cryo-EM structure of the ClpXP protein degradation machinery. Nat.Struct.Mol.Biol. US 26 946 954 2019 31582852 doi:10.1038/s41594-019-0304-0 1545-9985 EMD-10162 associated EM volume 6sfw FULLOVERLAP 6sfx FULLOVERLAP LmClpXP1/2 heterocomplex LmClpXP1/2 heterocomplex 0 1 2 3 Listeria monocytogenes s Escherichia coli BL21(DE3) LmClpXP1/2 1 1 2 3
LmCLP1 and LmCLP2 assemble into two heptameric rings which stack face to face to form the LmClpP1/2 heterocomplex. The chaperone ClpX forms a hexamer, that associates with the LmClpP2 heptamer.
Listeria monocytogenes EGD Escherichia coli BL21(DE3) LmClpP1 Listeria monocytogenes EGD Escherichia coli BL21(DE3) LEVO MAENTKNENITNILTQKLIDTRTVLIYGEINQELAEDVSKQLLLLESISNDPITIFINSQGGHVEAGDTIHDMIKFIKPT VKVVGTGWVASAGITIYLAAEKENRFSLPNTRYMIHQPAGGVQGQSTEIEIEAKEIIRMRERINRLIAEATGQSYEQISK DTDRNFWLSVNEAKDYGIVNEIIENRDGLKMASWSHPQFEK 3.4.21.92 LmClpP2 Listeria monocytogenes EGD Escherichia coli BL21(DE3) LEVO MNLIPTVIEQTSRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLDAQDPEKDIFLYINSPGGSISAGMAIYDT MNFVKADVQTIGMGMAASMGSFLLTAGANGKRFALPNAEIMIHQPLGGAQGQATEIEIAARHILKIKERMNTIMAEKTGQ PYEVIARDTDRDNFMTAQEAKDYGLIDDIIINKSGLKGHHHHHH DTDRNFWLSVNEAKDYGIVNEIIENRDGLKMASWSHPQFEK 3.4.21.92 LmClpX Listeria monocytogenes EGD Escherichia coli BL21 LEVO MFKFNDEKGQLKCSFCGKTQDQVRKLVAGPGVYICDECIELCNEIIEEELGISEFVDFGEVPKPQEIRHI LSDYVIGQERAKKALAVAVYNHYKRINSNETKEDEVELSKSNICLIGPTGSGKTLLAQTLARILNVPFAI ADATSLTEAGYVGEDVENILLKLIQSADYDVEKAEKGIIYIDEIDKVARKSENPSITRDVSGEGVQQALL KILEGTVASVPPQGGRKHPHQELIQIDTGNILFIVGGAFDGIEQIVKNRMGEKVIGFGTDNAKLKDDETY LSRVVPEDLLKFGLIPEFIGRLPVIATLEQLDEAALVSILTEPKNALVKQYKRMLELDDVELEFEPTALI EIAKEAIERKTGARGLRSIIEQIMLEVMFEIPSRDDITKCIITEKAARGEEEPQLQLEDGSIIPIKTSA 3.4.21.92 singleParticle particle 0.01 7.6 25.0 HEPES 200.0 KCl 5.0 MgCl2 1.0 DTT 0.5 ATP 5.0 Glycerol
The sample was crosslinked with 0.1% glutaraldehyde. The reaction was quenched after 30sec with 2 eq. Tris-HCL.
 Quantifoil R2/2 COPPER 400 CARBON CONTINUOUS 2.0 GLOW DISCHARGE ETHANE 90 GATAN CRYOPLUNGE 3
the sample was blotted after 45sec of incubation time..
FEI TITAN KRIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 300 0.0 59000.0 112807.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON III (4k x 4k) INTEGRATING 1 3200 2.0 114.0
Images were collected in movie-mode at a frame rate of 50msec
 1 613322 SPHIRE 1.0 CTER was used to estimate the CTF
An initial model was computed from 2D class averages using SPHIRE's VIPER
 C1 4.0 FSC 0.143 CUT-OFF SPHIRE 1.0 383927 MAXIMUM LIKELIHOOD SPHIRE 1.0 MAXIMUM LIKELIHOOD SPHIRE 1.0 SPHIRE emd_10162.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 244.16 244.16 244.16 90.0 90.0 90.0 X Y Z -0.08783696 0.1544804 0.0014495541 0.008608353 1.09 1.09 1.09 0.02 AUTHOR CryoEM density of ClpXP1/2 from Listeria monocytogenes. ClpP1/2 density filtered to 3.9A. ClpX density filtered to 6A. OTHER REAL emd_10162_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 244.16 244.16 244.16 90.0 90.0 90.0 X Y Z -0.021297654 0.06746572 0.001407317 0.005710996 1.09 1.09 1.09 AUTHOR half map 1 emd_10162_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 244.16 244.16 244.16 90.0 90.0 90.0 X Y Z -0.023042282 0.068882756 0.0014822518 0.0057794307 1.09 1.09 1.09 AUTHOR half map 0