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 = 107.87 α = 90
b = 117.59 β = 90
c = 64.88 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 -- 2005-03-31
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 96.9 0.128 0.128 -- 5.5 18449 18449 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 99.8 0.414 0.414 2.6 5.4 2551

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 -- 16485 1871 96.98 -- 0.18409 0.17726 0.24462 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 -- 142 1224 0.242 0.371 -- 99.71
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.205
Anisotropic B[1][1] -0.96
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.98
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.94
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.544
r_scbond_it 1.576
r_mcangle_it 1.281
r_mcbond_it 0.717
r_nbd_refined 0.233
r_gen_planes_refined 0.005
r_chiral_restr 0.104
r_dihedral_angle_4_deg 17.375
r_dihedral_angle_3_deg 19.697
r_dihedral_angle_2_deg 39.178
r_dihedral_angle_1_deg 6.273
r_angle_refined_deg 1.523
r_bond_refined_d 0.013
r_nbtor_refined 0.317
r_xyhbond_nbd_refined 0.169
r_symmetry_vdw_refined 0.204
r_symmetry_hbond_refined 0.119
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5208
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 138

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