X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Temperature 293.0
Details 10% PEG 8000; Imidazole pH 8.0; 0.2 M Ca(Ac)2, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K, pH 8.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.92 α = 90
b = 57.92 β = 90
c = 63.74 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2002-12-11
Diffraction Radiation
Monochromator Protocol
DOUBLE-CRYSTAL SI(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 0.97910, 0.97930, 0.91840 ALS 5.0.2

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
1.75 25.9 95.6 -- 0.076 -- 5.1 -- 10935 -- -- 27.98
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)
1.75 1.8 72.3 -- 0.417 2.2 2.3 --

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
MAD 1.75 25.9 -- 0.0 -- 9855 1079 95.5 -- 0.185 0.179 0.237 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 1.75 1.79 -- 53 524 0.242 0.323 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 16.26
Anisotropic B[1][1] -0.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.44
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.87
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.813
r_symmetry_vdw_other 0.308
r_symmetry_vdw_refined 0.166
r_gen_planes_refined 0.005
r_angle_other_deg 0.787
r_dihedral_angle_4_deg 19.45
r_bond_other_d 0.002
r_dihedral_angle_3_deg 13.712
r_gen_planes_other 0.001
r_symmetry_hbond_refined 0.149
r_dihedral_angle_1_deg 4.846
r_dihedral_angle_2_deg 37.0
r_bond_refined_d 0.016
r_chiral_restr 0.076
r_nbd_refined 0.211
r_mcbond_it 0.936
r_xyhbond_nbd_refined 0.194
r_angle_refined_deg 1.255
r_scangle_it 5.162
r_nbtor_other 0.086
r_nbd_other 0.235
r_scbond_it 3.051
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 963
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 128

Software

Software
Software Name Purpose
MOSFLM data reduction
CCP4/SCALA data reduction
RESOLVE/SOLVE model building
REFMAC(5.1.995) refinement
CCP4 data scaling version: (SCALA)
RESOLVE/SOLVE phasing
REFMAC refinement version: 5.1.995