X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 6.5
Temperature 298.0
Details PEG 3350, sodium acetate, ammonium sulfate, pH 6.5, EVAPORATION, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 107.76 α = 90
b = 117.51 β = 90
c = 64.58 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 2005-03-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R 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
2.9 50 99.7 0.127 0.127 -- 4.6 18752 18752 0.0 0.0 --
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)
2.9 3.0 100.0 0.408 0.408 2.1 4.7 2553

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 2.9 50.0 -- 0.0 -- 16829 1901 99.58 -- 0.18331 0.17728 0.23595 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 2.9 2.975 -- 139 1213 0.222 0.274 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.403
Anisotropic B[1][1] -1.5
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.13
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.63
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.466
r_scbond_it 1.501
r_mcangle_it 1.25
r_mcbond_it 0.705
r_nbd_refined 0.236
r_gen_planes_refined 0.005
r_chiral_restr 0.109
r_dihedral_angle_4_deg 19.698
r_dihedral_angle_3_deg 20.339
r_dihedral_angle_2_deg 36.786
r_dihedral_angle_1_deg 6.862
r_angle_refined_deg 1.591
r_bond_refined_d 0.013
r_nbtor_refined 0.319
r_xyhbond_nbd_refined 0.165
r_metal_ion_refined 0.044
r_symmetry_vdw_refined 0.211
r_symmetry_hbond_refined 0.073
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5208
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 133

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.2.0007 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0007 refinement