X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 10% dioxane, 30% PEG 8000, TRIS pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.94 α = 90
b = 56.94 β = 90
c = 209.51 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 BRANDEIS - B1 -- 2001-01-19
Diffraction Radiation
Monochromator Protocol
Si 111 MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12C 0.9793, 0.9790, 0.9686 NSLS X12C

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
2.8 30 99.5 0.048 0.048 -- 5.7 9501 9454 1.0 -3.0 66.0
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)
2.8 2.9 99.4 0.208 0.208 7.7 5.0 941

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 2.8 20.0 0.0 0.0 9426 9257 849 -- 0.245 0.245 0.241 0.28 random
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.299
Anisotropic B[1][2] -9.42
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.299
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.599
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.0
c_mcangle_it 2.02
c_scbond_it 1.83
c_mcbond_it 1.15
c_angle_deg 1.47
c_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2452
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 86

Software

Computing
Computing Package Purpose
MARMAD, DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHAKE-N-BAKE, MLPHARE, DM Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
SnB/MLPHARE/DM model building
DENZO/SCALEPACK data reduction
MARMAD data collection