2021-07-28 REL RCSB RCSB RCSB 2020-08-19 2021-04-28 2021-04-28 2021-07-28 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM56838 United States Cryo-EM structure of Grafix-stabilized PaFS prenyltransferase octamer with a peripheral cyclase domain - symmetry expanded class C Faylo JL van Eeuwen T Murakami K Christianson DW Faylo JL van Eeuwen T Kim HJ Gorbea Colon JJ Garcia BA Murakami K Christianson DW Structural insight on assembly-line catalysis in terpene biosynthesis. Nat Commun UK 12 3487 3487 2021 34108468 doi:10.1038/s41467-021-23589-9 2041-1723 EMD-22473 other EM volume
unfixed protein
 EMD-22484 other EM volume
Same data collection; contains pooled particles to improve resolution of octameric core
 EMD-22485 other EM volume
Same data collection, representing a different 3D class used in final reconstruction
 EMD-22487 other EM volume
Same data collection, representing a different 3D class used in final reconstruction
 EMD-22488 associated EM volume EMD-22489 other EM volume Phomopsis amygdali fusicoccadiene synthase (PaFS) Phomopsis amygdali fusicoccadiene synthase (PaFS) 0 1
PaFS octameric prenyltransferase domain is well-resolved in structure, with some density for a variably positioned cyclase domain alongside the octamer. Molecular weight reflects the calculated molecular weight of a prenyltransferase octamer plus one cyclase domain.
Diaporthe amygdali Escherichia coli BL21(DE3) BL21-CodonPlus (DE3)-RIL 0.43 Fusicoccadiene synthase Diaporthe amygdali
The final reconstruction accounts for an octamer of the C-terminal transferase domain, residues 414-719. Density on the periphery of the octamer accounts for the N-terminal cyclase domain
Escherichia coli BL21(DE3) LEVO MGSSHHHHHHSSGLVPRGSHMEFKYSEVVEPSTYYTEGLCEGIDVRKSKFTTLEDRGAIRAHEDWNKHIGPCREYRGTLGPRFSFISVAVPECIPERLEVISYANEFAFLHDDVTDHVGHDTGEVENDEMMTVFLEAAHTGAIDTSNKVDIRRAGKKRIQSQLFLEMLAIDPECAKTTMKSWARFVEVGSSRQHETRFVELAKYIPYRIMDVGEMFWFGLVTFGLGLHIPDHELELCRELMANAWIAVGLQNDIWSWPKERDAATLHGKDHVVNAIWVLMQEHQTDVDGAMQICRKLIVEYVAKYLEVIEATKNDESISLDLRKYLDAMLYSISGNVVWSLECPRYNPDVSFNKTQLEWMRQGLPSLESCPVLARSPEIDSDESAVSPTADESDSTEDSLGSGSRQDSSLSTGLSLSPVHSNEGKDLQRVDTDHIFFEKAVLEAPYDYIASMPSKGVRDQFIDALNDWLRVPDVKVGKIKDAVRVLHNSSLLLDDFQDNSPLRRGKPSTHNIFGSAQTVNTATYSIIKAIGQIMEFSAGESVQEVMNSIMILFQGQAMDLFWTYNGHVPSEEEYYRMIDQKTGQLFSIATSLLLNAADNEIPRTKIQSCLHRLTRLLGRCFQICDDYQNLVSADYTKQKGFCEDLDEGKWSLALIHMIHKQRSHMALLNVLSTGRKHGGMTLEQKQFVLDIIEEEKSLDYTRSVMMDLHVQLRAEIGRIEILLDSPNPAMRLLLELLRV 4.2.3.43 singleParticle particle 7.5
unspecified
 ETHANE LEICA EM CPC
Blot for 2.5 seconds before plunging.
FEI TITAN KRIOS SPOT SCAN BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K3 (6k x 4k) 1 6544 50.0 1 CTFFIND 4.1
ab initio model calculated in Relion
 1 C1 9.4 FSC 0.143 CUT-OFF RELION 3.0.7
Particles were subjected to symmetry expansion about C4 axis prior to partial signal subtraction (mask provided). Masked 3D classification was performed (mask provided) before final reconstruction using entire particles from one selected class (class C).
35571 MAXIMUM LIKELIHOOD COMMON LINE emd_22488.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 192 192 192 0 0 0 192 192 192 414.72003 414.72003 414.72003 90.0 90.0 90.0 X Y Z -0.019975774 0.060722668 0.0002880667 0.0029197985 2.16 2.16 2.16 0.0146 AUTHOR Final reconstruction Symmetry Expanded Class C AB INITIO MODEL emd_22488_msk_1.map emd_22488_msk_2.map emd_22488_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 192 192 192 0 0 0 192 192 192 414.72003 414.72003 414.72003 90.0 90.0 90.0 X Y Z -0.031358045 0.063388646 9.371632e-05 0.003359899 2.16 2.16 2.16 AUTHOR emd_22488_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 192 192 192 0 0 0 192 192 192 414.72003 414.72003 414.72003 90.0 90.0 90.0 X Y Z -0.026222302 0.06756215 8.741688e-05 0.0033581466 2.16 2.16 2.16 AUTHOR