8S2V | pdb_00008s2v

SSX structure of Lysozyme grown in microfluidic droplets


X-RAY DIFFRACTION

Serial Crystallography (SX)

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6H79 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROFLUIDIC329420 mg/mL Lysozyme dissolved in 20 mM sodium acetate pH 4.6 Precipitant: 6% PEG 6000 (W/V), 3.4M NaCl and 1M sodium acetate pH 3.0
Crystal Properties
Matthews coefficientSolvent content
2.0640.23

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 78.9α = 90
b = 78.9β = 90
c = 37.9γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELPSI JUNGFRAU 4M2023-01-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID291.07ESRFID29

Serial Crystallography

Sample delivery method
Diffraction IDDescriptionSample Delivery Method
1SOS Chipfixed target
Data Reduction
Diffraction IDFrames IndexedCrystal HitsFrames IndexedLatices Merged
1223042281522304

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
11.878.91000.9917.24641160724.06
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.831000.440.951.94

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)Mean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1.855.8531156758199.9910.1480.14560.160.18970.232.594
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]
0.0010.001-0.002
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg14.028
r_dihedral_angle_6_deg13.988
r_lrange_it7.614
r_lrange_other7.613
r_scangle_it6.812
r_scangle_other6.807
r_dihedral_angle_1_deg6.733
r_dihedral_angle_2_deg5.959
r_scbond_it4.351
r_scbond_other4.348
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1001
Nucleic Acid Atoms
Solvent Atoms66
Heterogen Atoms2

Software

Software
Software NamePurpose
REFMACrefinement
CrystFELdata reduction
CrystFELdata scaling
MOLREPphasing