X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 283.0
Details 1 M sodium acetate, 0.1 M ADA buffer, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 283K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.85 α = 90
b = 119.51 β = 90
c = 77.24 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-10-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 0.97872 APS 21-ID-D

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
2.25 50 97.1 0.07 -- -- 13.8 -- 21765 -- -- --
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)
2.25 2.29 76.5 0.432 -- -- 8.0 860

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 2.25 37.05 -- 0.0 -- 21748 1108 97.01 -- 0.1969 0.1937 0.2574 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 2.254 2.312 -- 68 1193 0.255 0.425 -- 77.36
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.0359
Anisotropic B[1][1] 0.17
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.95
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.12
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 2.048
r_dihedral_angle_1_deg 6.975
r_chiral_restr 0.139
r_scbond_it 3.177
r_scangle_it 4.998
r_dihedral_angle_3_deg 19.18
r_dihedral_angle_4_deg 19.11
r_gen_planes_refined 0.009
r_mcbond_it 1.103
r_bond_refined_d 0.021
r_dihedral_angle_2_deg 31.957
r_angle_refined_deg 1.783
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3245
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 66

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling
AutoSol phasing