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 = 107.53 α = 90
b = 117.39 β = 90
c = 64.83 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 -- 2005-04-19
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
2.4 50 98.1 0.071 0.071 -- 4.7 32305 32305 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)
2.4 2.49 98.8 0.42 0.42 2.9 4.4 3193

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 2.4 50.0 -- 0.0 -- 29018 3244 98.17 -- 0.2104 0.20431 0.26587 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 2.399 2.461 -- 253 2093 0.257 0.313 -- 98.7
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.66
Anisotropic B[1][1] -2.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.25
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.888
r_scbond_it 1.879
r_mcangle_it 1.479
r_mcbond_it 0.862
r_nbd_refined 0.224
r_gen_planes_refined 0.006
r_chiral_restr 0.109
r_dihedral_angle_4_deg 21.106
r_dihedral_angle_3_deg 19.382
r_dihedral_angle_2_deg 37.902
r_dihedral_angle_1_deg 6.768
r_angle_refined_deg 1.616
r_bond_refined_d 0.014
r_nbtor_refined 0.308
r_xyhbond_nbd_refined 0.173
r_symmetry_vdw_refined 0.249
r_symmetry_hbond_refined 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5192
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 124

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