2026-03-18 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2025-05-07 2026-03-18 2026-03-18 2026-03-18 Wellcome Trust 222493/Z/21/Z United Kingdom Focussed map (bottom) MiDAC complex Fairall L Schwabe JWR HDAC1 DNTTIP1 MIDEAS histone deacetylase complex, GENE REGULATION Fairall L Sirvydis K Turnbull RE Knottnerus SJ Gonchar O Muskett FW Jukes-Jones R van Brussel L van de Geer E van Gassen K Badenhorst P Johnson D Terhal PA van Hasselt PM van Jaarsveld RH Schwabe JW A de novo missense variant in MIDEAS results in increased deacetylase activity of the MiDAC HDAC complex causing a neurodevelopmental syndrome. Nat Commun UK 16 10472 10472 2025 41290615 doi:10.1038/s41467-025-65472-x 2041-1723 EMDB EMD-53565 associated EM volume Dimeric complex of HDAC1:MIDEAS:DNTTIP1 Dimeric complex of HDAC1:MIDEAS:DNTTIP1 0 1 2 3 4 Homo sapiens 0.225 singleParticle particle 0.2 7.5 10.0 C8H18N2O4S HEPES 25.0 KCl Potassium Chloride 1.0 C6H18O24P6 Inositol Hexaphosphate
10 mM HEPES, 25 mM KCl, 1 micromolar Inositol Hexaphosphate
 Quantifoil R1.2/1.3 GOLD 300 CARBON HOLEY GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV
Crosslinked with 0.1% formaldehyde and 0.0625% glutaraldehyde
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 1.2 2.4 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 77.0 100.0 GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 10709 2.0 46.7 1 3618574 cryoSPARC 4.4.1 PHASE FLIPPING AND AMPLITUDE CORRECTION
Ab initio
 1 2.89 FSC 0.143 CUT-OFF cryoSPARC 4.4.1 305895 MAXIMUM LIKELIHOOD cryoSPARC 4.4.1 MAXIMUM LIKELIHOOD cryoSPARC 4.4.1 5 cryoSPARC 4.4.1 emd_53565.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 278 278 278 0 0 0 278 278 278 333.878 333.878 333.878 90.0 90.0 90.0 X Y Z -2.3062193 4.5215592 0.00004686654 0.02305519 1.201 1.201 1.201 0.2 AUTHOR Focussed map 6Z2J PDB experimental model AB INITIO MODEL
Initial model was built using Modelangelo and compared with PDB entry 6Z2J
REAL 100.700000000000003 emd_53565_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 278 278 278 0 0 0 278 278 278 333.878 333.878 333.878 90.0 90.0 90.0 X Y Z -0.5688662 1.4951897 0.00073265063 0.032779347 1.201 1.201 1.201 AUTHOR emd_53565_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 278 278 278 0 0 0 278 278 278 333.878 333.878 333.878 90.0 90.0 90.0 X Y Z -0.59608686 1.4049532 0.0007535357 0.032741424 1.201 1.201 1.201 AUTHOR