X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 291.0
Details 100 mM MES, pH 6.0, and 8% PEG 4000 , VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.84 α = 90
b = 104.5 β = 109.04
c = 108.56 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 Triple striped vertical and horizantal focussing mirrors in Kirkpatrick-Baez geometry 2007-03-05
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97918 APS 24-ID-C

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
2.2 30 -- 0.084 0.084 -- 4.5 -- 87239 -- 1.0 --
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)
2.2 2.32 83.6 0.572 0.572 2.0 3.7 --

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 2.2 15.0 -- -- 89752 82641 4376 97.22 -- 0.19395 0.19159 0.23803 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 2.2 2.256 -- 263 4851 0.305 0.347 -- 79.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 23.103
Anisotropic B[1][1] -1.38
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.07
Anisotropic B[2][2] 2.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.24
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.777
r_scbond_it 1.736
r_mcangle_it 1.024
r_mcbond_it 0.532
r_nbd_refined 0.201
r_gen_planes_refined 0.006
r_chiral_restr 0.083
r_dihedral_angle_4_deg 21.802
r_dihedral_angle_3_deg 17.306
r_dihedral_angle_2_deg 35.853
r_dihedral_angle_1_deg 4.987
r_angle_refined_deg 1.249
r_bond_refined_d 0.011
r_nbtor_refined 0.3
r_xyhbond_nbd_refined 0.161
r_symmetry_vdw_refined 0.143
r_symmetry_hbond_refined 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10269
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 454

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Phaser Structure Solution
REFMAC 5.5.0066 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2 refinement
Phaser model building
ADSC version: Quantum data collection