8CVY

Human glycogenin-1 and glycogen synthase-1 complex in the apo mobile state


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined29.332
r_dihedral_angle_2_deg25.941
r_dihedral_angle_3_deg17.567
r_dihedral_angle_4_deg11.065
r_mcangle_it10.661
r_scbond_it5.804
r_mcbond_it5.781
r_dihedral_angle_1_deg4.721
r_angle_refined_deg1.237
r_chiral_restr0.113
RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined29.332
r_dihedral_angle_2_deg25.941
r_dihedral_angle_3_deg17.567
r_dihedral_angle_4_deg11.065
r_mcangle_it10.661
r_scbond_it5.804
r_mcbond_it5.781
r_dihedral_angle_1_deg4.721
r_angle_refined_deg1.237
r_chiral_restr0.113
r_gen_planes_refined0.007
r_bond_refined_d0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Sample
Human glycogenin-1 and glycogen synthase-1 complex in the apo ordered state
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details7 sec blotting time, 15 blot force
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles184341
Reported Resolution (Å)3.6
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1
Refinement SpaceRECIPROCAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeFEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)45
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS GLACIOS
Minimum Defocus (nm)700
Maximum Defocus (nm)2400
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARCv3.3.2
IMAGE ACQUISITIONEPU
CTF CORRECTIONcryoSPARCv3.3.2
MODEL FITTINGMOLREP
MODEL REFINEMENTREFMAC
INITIAL EULER ASSIGNMENTcryoSPARCv3.3.2
FINAL EULER ASSIGNMENTcryoSPARCv3.3.2
CLASSIFICATIONcryoSPARCv3.3.2
RECONSTRUCTIONcryoSPARCv3.3.2
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTIONCTF correction was performed in batch in early steps. CTF correction was performed on per particle bases in the last iterations914196