X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch Crystallization
pH 5.6
Temperature 293.0
Details PEGMME 5000, Ammonium Sulfate, pH 5.6, Microbatch Crystallization, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.6 α = 90
b = 78.81 β = 116.64
c = 44.69 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH monochromator 2002-02-04
Diffraction Radiation
Monochromator Protocol
Si 111 MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44B2 0.9804, 0.9808, 0.9825, 0.9720 SPring-8 BL44B2

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 50 97.9 0.036 -- -- 4.1 -- 16980 -- 70405.0 --
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 2.07 83.8 0.138 -- -- -- --

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 20.0 -- 0.0 -- 15778 819 100.0 -- 0.19694 0.19365 0.25884 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 2.006 2.058 -- 46 880 0.225 0.294 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.423
Anisotropic B[1][1] 0.19
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.97
Anisotropic B[2][2] -0.56
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.13
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 6.12
r_dihedral_angle_1_deg 5.711
r_symmetry_hbond_refined 0.224
r_scbond_it 3.8
r_chiral_restr 0.171
r_gen_planes_refined 0.009
r_mcbond_it 1.27
r_mcangle_it 2.247
r_bond_refined_d 0.024
r_nbd_refined 0.235
r_xyhbond_nbd_refined 0.208
r_angle_refined_deg 2.15
r_symmetry_vdw_refined 0.297
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1924
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 112

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
HKL-2000 data reduction
SCALEPACK data scaling
SOLVE phasing