X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.8
Temperature 25.0
Details 1.4M ammonium sulphate, cacodylate , pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 25K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.5 α = 90
b = 118.42 β = 90
c = 70 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2003-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 0.978 SSRL BL9-1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.3 70.7 93.5 -- 0.162 -- 3.1 26011 26011 0.0 0.0 37.1
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.3 2.36 89.1 -- 0.423 1.65 2.7 1779

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.3 70.71 0.0 0.0 26011 24745 1266 93.4 0.207 0.207 0.205 0.24829 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.3 2.36 1779 99 1779 0.269 0.335 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 43.702
Anisotropic B[1][1] -2.75
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -4.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.4
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_other 0.092
r_dihedral_angle_1_deg 6.296
r_bond_refined_d 0.017
r_angle_other_deg 0.82
r_nbd_refined 0.238
r_xyhbond_nbd_refined 0.196
r_symmetry_hbond_refined 0.196
r_mcbond_it 1.277
r_scangle_it 1.854
r_gen_planes_other 0.004
r_bond_other_d 0.001
r_angle_refined_deg 1.649
r_gen_planes_refined 0.007
r_scbond_it 1.176
r_nbd_other 0.255
r_mcangle_it 2.159
r_chiral_restr 0.083
r_symmetry_vdw_other 0.307
r_symmetry_vdw_refined 0.206
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.177
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4154
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 129

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing