X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 25% BUTANE-1,4-DIOL, 100MM TRIS PH 8.0,4DEGC, CRYOPROTECTED IN 40% BUTANE-1,4-DIOL, 25% ETHYLENE GLYCOL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 126.58 α = 90
b = 126.58 β = 90
c = 101.23 γ = 90
Symmetry
Space Group I 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2004-11-05
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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
2.9 44 99.9 0.16 -- -- 22.1 -- 393336 -- 6.0 --
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)
2.9 3.06 100.0 0.95 -- 3.6 22.3 --

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 2.9 89.44 -- -- -- 16875 904 99.9 -- 0.28 0.279 0.295 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 2.9 2.98 -- 65 1235 0.361 0.338 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 59.79
Anisotropic B[1][1] 0.32
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.32
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.65
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.833
r_scbond_it 1.239
r_mcangle_it 0.696
r_mcbond_it 0.595
r_nbd_refined 0.235
r_gen_planes_refined 0.003
r_chiral_restr 0.072
r_dihedral_angle_4_deg 14.325
r_dihedral_angle_3_deg 17.836
r_dihedral_angle_2_deg 35.81
r_dihedral_angle_1_deg 4.461
r_angle_refined_deg 0.956
r_bond_refined_d 0.02
r_nbtor_refined 0.293
r_xyhbond_nbd_refined 0.128
r_symmetry_vdw_refined 0.172
r_symmetry_hbond_refined 0.08
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1653
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SHARP Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
SHARP model building