X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.2
Temperature 293.0
Details PEG 3350, Hepes, Ammonium acetate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.94 α = 90
b = 71.76 β = 90
c = 71.96 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++ mirrors 2003-05-08
Diffraction Radiation
Monochromator Protocol
MSC/Osmic Blue 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
1.9 50 95.8 0.054 -- -- 2.5 22465 22465 1.0 1.0 28.0
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)
1.9 1.97 82.4 0.262 -- 1.3 1.73 2215

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 1.996 50.64 -- 1.0 19296 17489 1616 99.31 0.19404 0.19404 0.1871 0.27216 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 1.996 2.048 1307 106 1201 0.279 0.348 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.439
Anisotropic B[1][1] 0.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.37
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.464
r_bond_refined_d 0.023
r_angle_refined_deg 1.892
r_dihedral_angle_1_deg 6.569
r_chiral_restr 0.129
r_gen_planes_refined 0.009
r_nbd_refined 0.239
r_xyhbond_nbd_refined 0.182
r_symmetry_vdw_refined 0.275
r_symmetry_hbond_refined 0.214
r_mcbond_it 1.133
r_mcangle_it 1.914
r_scbond_it 2.981
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2345
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 197

Software

Computing
Computing Package Purpose
CRYSTALCLEAR (MSC/RIGAKU) Data Reduction (intensity integration)
D*TREK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement