X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 295.0
Details 25% PEG3350, 0.1M Ammonium sulfate, 0.1M Bis-Tris pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.26 α = 90
b = 106.26 β = 90
c = 90.14 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD Double crystal monochromator 2010-09-22
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97911 CLSI 08ID-1

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
2.55 50 100.0 0.118 -- -- 3.0 -- 37137 -- -- --
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)
2.55 2.64 100.0 0.533 -- -- 3.0 3677

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 2.55 45.77 -- 0.0 -- 37108 1854 99.97 -- 0.194 0.1913 0.2424 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 2.55 2.616 -- 124 2604 0.28 0.361 -- 99.963
X Ray Diffraction 2.616 2.688 -- 130 2559 0.252 0.31 -- 99.889
X Ray Diffraction 2.688 2.766 -- 133 2454 0.268 0.32 -- 99.961
X Ray Diffraction 2.766 2.851 -- 126 2395 0.249 0.291 -- 99.96
X Ray Diffraction 2.851 2.944 -- 121 2316 0.257 0.328 -- 100.0
X Ray Diffraction 2.944 3.047 -- 107 2309 0.228 0.304 -- 99.959
X Ray Diffraction 3.047 3.162 -- 130 2160 0.206 0.285 -- 100.0
X Ray Diffraction 3.162 3.291 -- 99 2055 0.203 0.266 -- 100.0
X Ray Diffraction 3.291 3.437 -- 97 2050 0.195 0.262 -- 100.0
X Ray Diffraction 3.437 3.605 -- 111 1903 0.178 0.231 -- 100.0
X Ray Diffraction 3.605 3.799 -- 104 1803 0.173 0.23 -- 100.0
X Ray Diffraction 3.799 4.029 -- 106 1706 0.162 0.236 -- 100.0
X Ray Diffraction 4.029 4.307 -- 87 1612 0.152 0.201 -- 100.0
X Ray Diffraction 4.307 4.651 -- 82 1519 0.128 0.149 -- 100.0
X Ray Diffraction 4.651 5.094 -- 64 1389 0.134 0.189 -- 100.0
X Ray Diffraction 5.094 5.693 -- 67 1242 0.166 0.188 -- 100.0
X Ray Diffraction 5.693 6.569 -- 55 1127 0.173 0.192 -- 100.0
X Ray Diffraction 6.569 8.036 -- 54 926 0.165 0.202 -- 100.0
X Ray Diffraction 8.036 11.321 -- 39 719 0.162 0.194 -- 100.0
X Ray Diffraction 11.321 92.027 -- 18 406 0.243 0.211 -- 99.297
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.2464
Anisotropic B[1][1] 0.78
Anisotropic B[1][2] 0.39
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.17
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.01
r_dihedral_angle_2_deg 30.006
r_dihedral_angle_3_deg 17.022
r_chiral_restr 0.083
r_angle_refined_deg 1.177
r_dihedral_angle_1_deg 5.91
r_dihedral_angle_4_deg 23.363
r_gen_planes_refined 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7568
Nucleic Acid Atoms 0
Heterogen Atoms 67
Solvent Atoms 38

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement version: refmac_5.6.0081
PDB_EXTRACT data extraction version: 3.10
MxDC data collection
HKL-2000 data reduction
HKL-2000 data scaling