X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 290.0
Details 28% PEG 20000, 0.05M AMPSO, 1% glycerol, pH 9, VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 29.4 α = 90
b = 46.8 β = 103.84
c = 46.72 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD Mirrors 2006-06-28
Diffraction Radiation
Monochromator Protocol
a double crystal Si(III,)with horizontal saggital focusing system SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX10.1 1.07400 SRS PX10.1

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
1.1 45.36 99.82 0.047 -- -- 5.0 -- 47339 1.1 1.1 --
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)
1.1 1.16 100.0 0.392 0.41 2.8 3.8 7261

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 1.1 11.21 -- -- -- 47339 2532 99.82 -- 0.20506 0.20354 0.23424 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 1.1 1.129 -- 196 3476 0.349 0.353 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.862
Anisotropic B[1][1] 0.28
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.92
Anisotropic B[2][2] 1.8
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.51
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 26.446
r_chiral_restr 0.312
r_nbtor_refined 0.304
r_symmetry_hbond_refined 0.384
r_bond_refined_d 0.02
r_dihedral_angle_1_deg 7.058
r_nbd_refined 0.216
r_dihedral_angle_2_deg 35.876
r_gen_planes_refined 0.011
r_angle_refined_deg 1.935
r_symmetry_vdw_refined 0.339
r_dihedral_angle_3_deg 14.259
r_xyhbond_nbd_refined 0.131
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1073
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 100

Software

Software
Software Name Purpose
AMoRE phasing
REFMAC refinement version: 5.2.0019
SCALA data scaling