X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.08 M MAGNESIUM ACETATE, 0.05M SODIUM CACODYLATE PH 6.5, 30 % PEG 4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 35.4 α = 90
b = 58.92 β = 101.48
c = 36.58 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 ADSC -- 2003-05-05
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.861,1.040 ESRF BM14

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
1.5 25 98.6 0.08 -- -- 3.7 -- 23341 -- 2.0 --
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)
1.5 1.58 99.5 0.44 -- 3.2 3.3 --

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 1.5 25.0 -- -- -- 22641 617 98.2 -- 0.147 0.145 0.2 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 1.5 1.54 -- 43 1673 0.206 0.238 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.01
Anisotropic B[1][1] 0.57
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.44
Anisotropic B[2][2] -0.64
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.62
r_scbond_it 3.225
r_mcangle_it 2.383
r_mcbond_it 1.657
r_nbd_refined 0.217
r_gen_planes_other 0.009
r_gen_planes_refined 0.01
r_chiral_restr 0.131
r_dihedral_angle_1_deg 6.717
r_angle_other_deg 0.958
r_angle_refined_deg 1.785
r_bond_other_d 0.002
r_bond_refined_d 0.02
r_nbd_other 0.264
r_nbtor_other 0.091
r_xyhbond_nbd_refined 0.162
r_symmetry_vdw_refined 0.148
r_symmetry_vdw_other 0.273
r_symmetry_hbond_refined 0.202
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1195
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 217

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
RSPS,MLPHARE,DM Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
DM model building
MLPHARE model building
RSPS model building