X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 294.0
Details 0.1M MES pH 6.5, 18% PEG-monomethyl ether 5K, vapor diffusion, hanging drop, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.44 α = 90
b = 71.68 β = 103.02
c = 75.19 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- 2007-02-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X8C 0.9800 NSLS X8C

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 97.4 0.046 -- -- 2.5 -- 45124 -- -- --
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 84.6 0.315 -- -- 2.2 7434

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
SAD 2.0 50.0 -- 0.0 -- 44333 2239 98.25 -- 0.239 0.238 0.271 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 2.046 -- 150 2767 0.269 0.302 -- 87.76
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.753
Anisotropic B[1][1] -1.31
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.22
Anisotropic B[2][2] 1.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.57
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.188
r_xyhbond_nbd_refined 0.118
r_dihedral_angle_4_deg 17.386
r_symmetry_vdw_refined 0.172
r_nbtor_refined 0.294
r_gen_planes_refined 0.003
r_bond_refined_d 0.007
r_chiral_restr 0.065
r_scangle_it 1.83
r_angle_refined_deg 1.054
r_scbond_it 1.214
r_mcbond_it 0.675
r_dihedral_angle_1_deg 5.224
r_dihedral_angle_2_deg 33.653
r_symmetry_hbond_refined 0.15
r_mcangle_it 0.908
r_dihedral_angle_3_deg 14.524
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3406
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 143

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.2.0019
PDB_EXTRACT data extraction version: 3.006
HKL-2000 data reduction
HKL-2000 data scaling
SHELXS phasing