X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Temperature 293.0
Details 25.5 % PEG 4000; 0.085 M Tris pH 8.5; 0.17 M Na(Ac), 15 % Glycerol, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K, pH 8.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.41 α = 90
b = 58.41 β = 90
c = 102.49 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM -- 2002-10-13
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 0.97780, 0.91840, 0.97920 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
2 32.16 99.0 -- 0.061 -- 11.8 -- 12462 -- -- 36.49
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)
2.0 2.05 90.9 -- 0.375 3.2 6.2 --

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
MAD 2.0 29.49 -- 0.0 -- 11574 887 99.0 -- 0.186 0.182 0.238 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 2.0 2.05 -- 52 757 0.233 0.305 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 23.83
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.04
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 40.914
r_dihedral_angle_3_deg 15.381
r_bond_refined_d 0.016
r_symmetry_vdw_other 0.3
r_bond_other_d 0.002
r_dihedral_angle_1_deg 6.319
r_scangle_it 9.514
r_symmetry_hbond_refined 0.184
r_nbtor_other 0.081
r_nbd_other 0.243
r_mcbond_it 2.0
r_scbond_it 6.342
r_gen_planes_refined 0.006
r_xyhbond_nbd_refined 0.237
r_dihedral_angle_4_deg 10.177
r_mcangle_it 3.707
r_symmetry_vdw_refined 0.14
r_chiral_restr 0.098
r_angle_refined_deg 1.444
r_nbd_refined 0.193
r_gen_planes_other 0.001
r_angle_other_deg 0.825
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1223
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 102

Software

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