X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 100 MM HEPES 1.15 M SODIUM MALONATE, pH 7.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 204.2 α = 90
b = 204.2 β = 90
c = 204.2 γ = 90
Symmetry
Space Group I 2 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2004-09-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
3 50 100.0 0.16 -- -- 8.1 -- 28431 -- 1.5 --
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)
3.0 3.16 100.0 0.49 -- 1.5 8.2 --

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 3.0 19.84 -- -- -- 26848 1430 100.0 -- 0.178 0.174 0.249 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 3.0 3.08 -- 91 1954 0.274 0.379 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.87
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.146
r_dihedral_angle_1_deg 7.33
r_bond_refined_d 0.012
r_dihedral_angle_2_deg 36.926
r_scbond_it 1.286
r_angle_refined_deg 1.506
r_symmetry_hbond_refined 0.239
r_symmetry_vdw_refined 0.342
r_dihedral_angle_3_deg 20.603
r_mcbond_it 0.556
r_mcangle_it 0.959
r_nbd_refined 0.227
r_dihedral_angle_4_deg 20.161
r_scangle_it 2.111
r_gen_planes_refined 0.004
r_chiral_restr 0.099
r_nbtor_refined 0.321
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8180
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 49

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
MOSFLM data reduction
SCALA data scaling
AMoRE phasing