2025-12-24 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2025-01-28 2025-12-24 2025-12-24 2025-12-24 German Research Foundation (DFG) FOR2509 (P07) Germany Structure of the Chaetomium thermophilum Pmt4 homodimer (C1 symmetry) McDowell MA Wild K Sinning I homodimer, glycosylation, ER, biogenesis, MEMBRANE PROTEIN McDowell MA Wild K Fiorentino F Bausewein D Metschies A Chiapparino A Hackmann Y Bilsing FL Brenske D Mortensen S Wu D Robinson CV Strahl S Sinning I Structural characterisation of the fungal Pmt4 homodimer. Nat Commun UK 16 11134 11134 2025 41392315 doi:10.1038/s41467-025-67412-1 2041-1723 EMD-52631 other EM volume 9i5l FULLOVERLAP PDB 9FD1 unspecified PDB 9FD0 unspecified PDB 9I5K unspecified EMDB EMD-52631 other EM volume EMDB EMD-52632 associated EM volume
Structure of the Chaetomium thermophilum Pmt4 homodimer (C1 symmetry)
 Chaetomium thermophilum Pmt4 homodimer bound to dolichol-phosphate and dolichol-phosphate-mannose Chaetomium thermophilum Pmt4 homodimer bound to dolichol-phosphate and dolichol-phosphate-mannose 0 1 Thermochaetoides thermophila 0.18 Dolichyl-phosphate-mannose--protein mannosyltransferase Thermochaetoides thermophila 0.092046484 2 Saccharomyces cerevisiae LEVO MSGSPAPQGALRQRIVASTPKKTKESKDGAASDAELDKLVKEAAAAKAPAGSERDYKIAFAIITALAFLTRFWGISHPDQ VVFDEVHFGKFASYYLQRTYFFDVHPPLGKLLFAFMGWLVGYDGHFHFDNIGDPYVINKVPYVAFRALPAILGSLTVSVV FLIMWESGYSLPACILASGLVLLDNAHIGQTRLILLDATLVFAMACSLLCYIKFYKLRHEPFSRKWWKWLILTGFALSCD ISTKYVGLFAFITIGSAVCIDLWDLLNINRPKGALTLPQFGKHFAARAFGLIFMPFMFYLFWFQVHFSILTRSGPGDDFM TPEFQETLSDNIMLANAVTIDYWDTITIKHKETKAYLHSHPDRYPLRYDDGRVSSQGQQVTGYPFNDTNNWWQILPAGPF EEPKLGRHVKHRDLVRLRHVGTDTYLLSHDVASPYYPTNQEFTTVSFNEAYGDRAADTLFEVRIEHGKPGQEFKSISSHF KLIHNPSKVAMWTHPTPLPDWGHRQQEINGNKQIAPSSNVWLVEDIVSLPADHKRREKPERKVKTLPFLRKWFELQRSMF WHNNQLTASHPYASLPYQWPFLLRGVSFWTNSETRQQIYFLGNPVGWWIASSVLAIYVGIVLADQFSLRRGIDALDHRTR SRLYNSTGFFFLAWATHYFPFFVMGRQLFLHHYLPAHLASTLVTGALVEFIFSPEAPEHEIAAQQAKSSSSGKRGGVAMK RHITARERFAGQSLMGSWIATAVILALVAWSWWFFLPLTYGYPGMSVQQVLRRKWLGYDLHFAKLEVLFQGPGSHHHHHH HHHH G0SET1 2.4.1.109 dolichol-phosphate-mannose (n=2) 0.00068488 2 A1I0N dolichol-phosphate (n=4) 0.000658974 2 A1I0M singleParticle particle 1.7 7.5
20 mM HEPES pH 7.5 200 mM NaCl 0.01% (w/v) LMNG 0.001% (w/v) cholesterol
 Quantifoil R1.2/1.3 COPPER 300 GLOW DISCHARGE ETHANE 100 279 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.8 2.0 GATAN K2 SUMMIT (4k x 4k) 1 9879 42.7 1 2199173 RELION 3.1 PHASE FLIPPING AND AMPLITUDE CORRECTION C1 3.4 FSC 0.143 CUT-OFF RELION 3.1 347202 MAXIMUM LIKELIHOOD cisTEM MAXIMUM LIKELIHOOD RELION 3.1 4 RELION 3.1 emd_52632.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 211.712 211.712 211.712 90.0 90.0 90.0 X Y Z -0.053151924 0.08785172 0.000022085069 0.002965799 0.827 0.827 0.827 0.01 AUTHOR final map used for model building 9FD1 A PDB experimental model
MIR domain crystal structure
 9I5K PDB experimental model
cryoEM structure of TMDs from C2 symmeterised map
 RIGID BODY FIT REAL emd_52632_msk_1.map emd_52632_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 211.712 211.712 211.712 90.0 90.0 90.0 X Y Z -0.24972406 0.6199857 0.0033347155 0.025904253 0.827 0.827 0.827 AUTHOR local density sharpening with LocScale to represent each region at its local resolution emd_52632_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 211.712 211.712 211.712 90.0 90.0 90.0 X Y Z -0.013491877 0.030301623 0.000022085069 0.001477744 0.827 0.827 0.827 AUTHOR map low-pass filtered to 6 A emd_52632_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 211.712 211.712 211.712 90.0 90.0 90.0 X Y Z -0.01639165 0.030509083 0.000022131708 0.0018870017 0.827 0.827 0.827 AUTHOR emd_52632_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 211.712 211.712 211.712 90.0 90.0 90.0 X Y Z -0.017189134 0.030202007 0.00002203843 0.0018948724 0.827 0.827 0.827 AUTHOR