2021-02-24 REL PDBe PDBe PDBe 2021-01-22 2021-02-10 2021-02-10 2021-02-24 C. thermophilum Pyruvate Dehydrogenase Complex Core from native cell extracts Kyrilis FL Semchonok DA Skalidis I Tueting C Hamdi F O'Reilly FJ Rappsilber J Kastritis PL Kyrilis FL Semchonok DA Skalidis I Tuting C Hamdi F O'Reilly FJ Rappsilber J Kastritis PL Integrative structure of a 10-megadalton eukaryotic pyruvate dehydrogenase complex from native cell extracts. Cell Rep US 34 108727 108727 2021 33567276 doi:10.1016/j.celrep.2021.108727 2211-1247 EMD-12181 other EM volume
cryo-EM structure of PDHc core
 EMD-12234 associated EM volume Native core of the Pyruvate Dehydrogenase Complex from C. thermophilum Native core of the Pyruvate Dehydrogenase Complex from C. thermophilum 0 1 Chaetomium thermophilum var. thermophilum DSM 1495 3 Dihydrolipoyl transacylase, Pyruvate Dehydrogenase Complex E2 component Chaetomium thermophilum var. thermophilum DSM 1495 LEVO MLAQVLRRQALQHVRLARAAAPSLTRWYASYPPHTIVKMPALSPTMTSGNIGAWQKKPGDAITPGEVLVEIETDKAQMDFEFQEEGVLAKILKETGEKDVAVGSPIAVLVEEGTDINAFQNFTLEDAGGDAAAPAAPAKEELAKAETAPTPASTSAPEPEETTSTGKLEPALDREPNVSFAAKKLAHELDVPLKALKGTGPGGKITEEDVKKAASAPAAAAAAPGAAYQDIPISNMRKTIATRLKESVSENPHFFVTSELSVSKLLKLRQALNSSAEGRYKLSVNDFLIKAIAVACKRVPAVNSSWRDGVIRQFDTVDVSVAVATPTGLITPIVKGVEAKGLETISATVKELAKKARDGKLKPEDYQGGTISISNMGMNPAVERFTAIINPPQAAILAVGTTKKVAVPVENEDGTTGVEWDDQIVVTASFDHKVVDGAVGAEWMRELKKVVENPLELLL 2.3.1.12 singleParticle particle 0.02 7.4 200.0 NH4CH2COOH Ammonium acetate NEGATIVE Uranyl Acetate C-flat COPPER 400 CARBON CONTINUOUS 10.0 GLOW DISCHARGE
fractionated native cell extract
 TFS GLACIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 200 100.0 2.7 0.5 4.0 36000.0 34739.0 OTHER NITROGEN 77.15 120.0
Coma Free kept better than 200nm in EPU
FEI FALCON III (4k x 4k) INTEGRATING 4096 4096 14.0 1 1926 30.0 1 1407677
Automated particle selection with the template derived from manual picking (selection)
 Gctf 1.06 6CT0 1 I SIMULTANEOUS ITERATIVE (SIRT) 14.2 FSC 0.5 CUT-OFF RELION 3.0 267547 ANGULAR RECONSTITUTION RELION 3.0 ANGULAR RECONSTITUTION RELION 3.0 RELION 3.0 emd_12234.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.051921524 0.17748983 -0.00049081567 0.010953227 4.03 4.03 4.03 0.0747 AUTHOR 6CT0 A RIGID BODY FIT REAL emd_12234_additional_17.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.16328776 0.24601918 -0.010382773 0.02811325 3.18 3.18 3.18 AUTHOR emd_12234_additional_16.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.11677938 0.21817707 -0.00966015 0.025013043 3.18 3.18 3.18 AUTHOR emd_12234_additional_9.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.21269837 0.2260086 -0.01955094 0.034217406 3.18 3.18 3.18 AUTHOR emd_12234_additional_8.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.22699368 0.22571884 -0.019894157 0.034226142 3.18 3.18 3.18 AUTHOR emd_12234_additional_11.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.12684676 0.2855276 -0.0012538482 0.024106067 3.18 3.18 3.18 AUTHOR emd_12234_additional_10.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.11728246 0.27703115 -0.0009711819 0.02324717 3.18 3.18 3.18 AUTHOR emd_12234_additional_13.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.14490543 0.25130677 -0.010833187 0.027304675 3.18 3.18 3.18 AUTHOR emd_12234_additional_12.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.14263366 0.29995748 -0.0013663304 0.024025563 3.18 3.18 3.18 AUTHOR emd_12234_additional_15.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.16044812 0.25560442 -0.0069601503 0.030322392 3.18 3.18 3.18 AUTHOR emd_12234_additional_14.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.1710813 0.26886693 -0.0103779845 0.029028004 3.18 3.18 3.18 AUTHOR emd_12234_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.054414175 0.2960897 0.0015633325 0.024967723 3.18 3.18 3.18 AUTHOR emd_12234_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.06603473 0.2961967 0.0011905717 0.024884002 3.18 3.18 3.18 AUTHOR emd_12234_additional_18.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.1585569 0.2463823 -0.01084585 0.028376652 3.18 3.18 3.18 AUTHOR emd_12234_additional_5.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.12185748 0.22682902 -0.0026705784 0.013112074 4.03 4.03 4.03 AUTHOR emd_12234_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.12153731 0.22127701 -0.002359008 0.013170185 4.03 4.03 4.03 AUTHOR emd_12234_additional_7.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.20727256 0.20859638 -0.021037092 0.03447356 3.18 3.18 3.18 AUTHOR emd_12234_additional_6.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.1234962 0.2230092 -0.0029811915 0.013027255 4.03 4.03 4.03 AUTHOR emd_12234_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 795.0 795.0 795.0 90.0 90.0 90.0 X Y Z -0.06480558 0.28377938 0.0016846549 0.024762137 3.18 3.18 3.18 AUTHOR emd_12234_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.05094355 0.17853968 -0.00048988074 0.010925759 4.03 4.03 4.03 AUTHOR emd_12234_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 0 0 0 250 250 250 1007.50006 1007.50006 1007.50006 90.0 90.0 90.0 X Y Z -0.051703654 0.17884956 -0.00048421355 0.010936419 4.03 4.03 4.03 AUTHOR