2024-03-13 REL RCSB RCSB RCSB 2017-05-24 2017-06-14 2017-06-14 2024-03-13 National Institutes of Health/National Institute of Biomedical Imaging and Bioengineering (NIH/NIBIB) DP2EB020402 United States Rabbit muscle aldolase using 200keV Herzik Jr MA Wu M Lander GC glycolytic enzyme, LYASE Herzik MA Wu M Lander GC Achieving better-than-3- angstrom resolution by single-particle cryo-EM at 200 keV. Nat. Methods US 14 1075 1078 2017 28991891 doi:10.1038/nmeth.4461 1548-7105 5vy5 FULLOVERLAP Rabbit Muscle Aldolase Rabbit Muscle Aldolase 0 1
Rabbit Muscle Aldolase (reconstituted from lyophilized form)
Oryctolagus cuniculus 0.15 Fructose-bisphosphate aldolase A Oryctolagus cuniculus Muscle 0.039263672 4 Escherichia coli LEVO PHSHPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIAKRLQSIGTENTEENRRFYRQLLLTADDRVNPCIGGVILFH ETLYQKADDGRPFPQVIKSKGGVVGIKVDKGVVPLAGTNGETTTQGLDGLSERCAQYKKDGADFAKWRCVLKIGEHTPSA LAIMENANVLARYASICQQNGIVPIVEPEILPDGDHDLKRCQYVTEKVLAAVYKALSDHHIYLEGTLLKPNMVTPGHACT QKYSHEEIAMATVTALRRTVPPAVTGVTFLSGGQSEEEASINLNAINKCPLLKPWALTFSYGRALQASALKAWGGKKENL KAAQEEYVKRALANSLACQGKYTPSGQAGAAASESLFISNHAY P00883 4.1.2.13 singleParticle particle 1.6 7.5 20.0 C8H18N2O4S HEPES 50.0 NaCl sodium chloride Quantifoil, UltrAuFoil, R1.2/1.3 GOLD 300 PLASMA CLEANING OTHER 0.009000000000000001
15 Watts
 ETHANE 100 277.15 HOMEMADE PLUNGER
3 uL of sample/grid was manually blotted for 4 seconds prior to immediate plunge-freezing in liquid nitrogen-cooled ethane..
Specimen was prepared from lyophilized rabbit muscle aldolase (Sigma Aldrich)
 FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 70.0 2.7 0.6 2.7 45000.0 NITROGEN GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 7420 7676 1-44 1 810 11.0 68.0
Images collected using stage position navigation to target exposure.
 1
Movies were collected in super-resolution mode and Fourier-binned by two prior to motion correction and dose weighting using MotionCor2 program.
1009341
Template-based particle picking was performed using templates generated from reference-free 2D classification of an initial set of automated particle picks.
 6ALD
Initial model was low-passed filtered to 30 Angstrom resolution
 D2 BACK PROJECTION 2.6 FSC 0.143 CUT-OFF RELION 2.0 83910 PROJECTION MATCHING RELION 2.0 PROJECTION MATCHING RELION 2.0 emd_8743.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 116.48 116.48 116.48 90.0 90.0 90.0 X Y Z -0.12886381 0.27526063 -0.00047117248 0.021202467 0.91 0.91 0.91 0.045 AUTHOR Final sharpened map of rabbit muscle aldolase OTHER
Starting model was generated by stripping PDB entry 6ALD of all ligands and alternate conformations, then refining into the EM density using imposed symmetry while adjusting weighting/scoring according to estimated map resolution. The top 10 generated models (ranked based on quality metrics) were real-space refined using Phenix software.
Maximum Likelihood REAL 35.0 emd_8743_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 116.48 116.48 116.48 90.0 90.0 90.0 X Y Z -0.07088263 0.1694407 -0.0004705935 0.013825172 0.91 0.91 0.91 AUTHOR Unsharpened map of rabbit muscle aldolase emd_8743_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 368 368 368 -120 -120 -120 368 368 368 334.88 334.88 334.88 90.0 90.0 90.0 X Y Z -0.022848353 0.06109522 0.00000932973 0.0015985895 0.91 0.91 0.91 AUTHOR Rabbit muscle aldolase, odd half map emd_8743_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 368 368 368 -120 -120 -120 368 368 368 334.88 334.88 334.88 90.0 90.0 90.0 X Y Z -0.026347274 0.061460327 0.00001085031 0.001603671 0.91 0.91 0.91 AUTHOR Rabbit muscle aldolase, even half map