6SU4

Crystal structure of the 48C12 heliorhodopsin in the blue form at pH 4.3


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4HYJ 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1LIPIDIC CUBIC PHASE293The crystals were grown using in meso crystallization technique. Precipitant: 2.4 M AmSO4; pH 4.3
Crystal Properties
Matthews coefficientSolvent content
2.8256.44

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.177α = 90
b = 60.744β = 92.02
c = 92.913γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 9M2019-06-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSOLEIL BEAMLINE PROXIMA 20.987SOLEILPROXIMA 2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.548.8199.60.070.0810.0410.9998.93.899767
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.53951.5861.8460.9330.3333.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4HYJ1.52094710499199.560.17470.17340.201RANDOM27.433
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.890.170.780.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.945
r_dihedral_angle_4_deg21.957
r_dihedral_angle_3_deg13.444
r_dihedral_angle_1_deg5.664
r_angle_other_deg1.25
r_angle_refined_deg1.166
r_chiral_restr0.065
r_gen_planes_refined0.005
r_bond_refined_d0.004
r_bond_other_d
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.945
r_dihedral_angle_4_deg21.957
r_dihedral_angle_3_deg13.444
r_dihedral_angle_1_deg5.664
r_angle_other_deg1.25
r_angle_refined_deg1.166
r_chiral_restr0.065
r_gen_planes_refined0.005
r_bond_refined_d0.004
r_bond_other_d
r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3933
Nucleic Acid Atoms
Solvent Atoms162
Heterogen Atoms438

Software

Software
Software NamePurpose
Aimlessdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
MOLREPphasing