X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details CRYSTALLIZATION BY HANGING DROP AT 4C. CONDITIONS IN DROP: PROTEIN AT 35 MG/ML IN 200MM TRIS (PH 8.0) AND 60% V/V (R)-MPD. CONDITIONS IN RESERVOIR: 200MM TRIS (PH 8.0).

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.53 α = 90
b = 77.53 β = 90
c = 37.9 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 TOROIDAL FOCUSING MIRROR 2011-04-23
Diffraction Radiation
Monochromator Protocol
SI(111) CHANNEL CUT SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X6A -- NSLS X6A

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 15 99.3 0.07 -- -- 13.7 -- 62397 -- 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)
1.0 1.02 99.0 0.82 -- 2.51 11.2 --

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
MOLECULAR REPLACEMENT 1.0 13.3 -- -- -- 59136 3155 99.22 -- 0.12463 0.12364 0.14355 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 1.0 1.026 -- 202 4036 0.25 0.257 -- 99.04
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.238
Anisotropic B[1][1] -0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.06
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 6.962
r_sphericity_free 19.02
r_rigid_bond_restr 1.203
r_gen_planes_other 0.001
r_gen_planes_refined 0.005
r_chiral_restr 0.083
r_dihedral_angle_4_deg 14.1
r_dihedral_angle_3_deg 11.715
r_dihedral_angle_2_deg 33.616
r_dihedral_angle_1_deg 5.723
r_angle_other_deg 0.938
r_angle_refined_deg 1.306
r_bond_other_d 0.001
r_bond_refined_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1000
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 179

Software

Computing
Computing Package Purpose
HKL2000 Data Reduction (intensity integration)
HKL2000 Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0087 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0087 refinement
MOLREP model building