9HJD | pdb_00009hjd

Cryo-EM structure of domperidone-bound human SLC19A3 in inward-open state


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg17.348
r_dihedral_angle_3_deg15.294
r_dihedral_angle_1_deg4.855
r_angle_refined_deg1.422
r_dihedral_angle_2_deg0.925
r_angle_other_deg0.771
r_nbd_refined0.234
r_symmetry_nbd_other0.222
r_nbtor_refined0.213
r_xyhbond_nbd_refined0.169
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg17.348
r_dihedral_angle_3_deg15.294
r_dihedral_angle_1_deg4.855
r_angle_refined_deg1.422
r_dihedral_angle_2_deg0.925
r_angle_other_deg0.771
r_nbd_refined0.234
r_symmetry_nbd_other0.222
r_nbtor_refined0.213
r_xyhbond_nbd_refined0.169
r_symmetry_nbtor_other0.086
r_chiral_restr0.054
r_gen_planes_other0.011
r_bond_refined_d0.009
r_gen_planes_refined0.007
r_bond_other_d0.002
r_mcbond_it
r_mcbond_other
r_mcangle_it
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
r_scangle_other
r_lrange_it
r_lrange_other
Sample
hSLC19A3:Nb3.3:domperidone
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification Instrument
Cryogen NameETHANE-PROPANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles427625
Reported Resolution (Å)3.35
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Map-Model Fitting and Refinement
Id1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeFEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)60
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS KRIOS
Minimum Defocus (nm)500
Maximum Defocus (nm)1700
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING ONLY