X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 290.0
Details 0.1M BisTris, 0.2M ammonium sulfate, 16-20% polyethylene glycol 4000, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.81 α = 90
b = 77.07 β = 90
c = 189.38 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ OSMIC 2004-10-24
Diffraction Radiation
Monochromator Protocol
OSMIC SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 1.5418 -- --

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
2.1 20 96.6 0.07 -- -- 5.6 37990 37990 -- -- --
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)
2.1 2.17 95.7 0.63 -- 3.0 5.3 --

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 2.1 20.0 -- -- -- 36033 1898 96.45 -- 0.1796 0.17634 0.2406 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 2.1 2.155 -- 147 2599 0.218 0.316 -- 95.12
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.672
Anisotropic B[1][1] 0.65
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.22
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.42
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.715
r_chiral_restr 0.113
r_scbond_it 2.706
r_symmetry_hbond_refined 0.128
r_dihedral_angle_4_deg 18.04
r_dihedral_angle_2_deg 34.979
r_bond_refined_d 0.019
r_nbtor_refined 0.306
r_dihedral_angle_1_deg 5.978
r_dihedral_angle_3_deg 15.747
r_gen_planes_refined 0.008
r_mcangle_it 1.645
r_scangle_it 4.033
r_nbd_refined 0.207
r_xyhbond_nbd_refined 0.154
r_mcbond_it 1.053
r_symmetry_vdw_refined 0.317
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4876
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 344

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
CrystalClear data collection
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing