X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 3.6M NaCl, 0.1 M Hepes 7.5, 3% PEG monomethylether 550, hanging drop, temperature 291K, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 123.28 α = 90
b = 123.28 β = 90
c = 72.49 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-04-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
1.8 33 99.9 0.096 -- -- 11.0 -- 58185 -- -- --
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)
1.8 1.86 100.0 0.88 -- -- 10.7 --

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 2.0 31.95 -- -- -- 40298 2160 99.92 -- 0.17928 0.17676 0.22676 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 2.052 -- 146 2991 0.197 0.243 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.281
Anisotropic B[1][1] -1.55
Anisotropic B[1][2] -0.77
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.55
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.32
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.186
r_dihedral_angle_4_deg 25.156
r_dihedral_angle_1_deg 7.136
r_dihedral_angle_3_deg 17.875
r_scbond_it 4.177
r_scangle_it 6.565
r_dihedral_angle_2_deg 34.523
r_bond_refined_d 0.028
r_mcbond_it 1.588
r_mcangle_it 2.802
r_angle_refined_deg 2.228
r_gen_planes_refined 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3199
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 452

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing version: 2.1.4
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.100