X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 10-15% PEG4000, 50-100 mM RbCl, 50 mM HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 120.25 α = 90
b = 165.5 β = 90
c = 94.42 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD -- 2008-12-08
Diffraction Radiation
Monochromator Protocol
Double crystal monochrometer SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.97837, 0.97887, 0.9558 SSRL BL9-2

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
1.95 30 100.0 0.087 -- -- -- 68791 68757 -3.0 -3.0 20.8
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)
1.95 2.05 99.7 0.497 -- 2.3 -- --

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
MAD 1.95 29.94 -- -- 68791 65298 3448 99.7 0.17407 0.17407 0.17268 0.19985 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 1.948 1.998 -- 246 4603 0.246 0.284 -- 96.34
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.208
Anisotropic B[1][1] -0.38
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.69
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.31
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.014
r_dihedral_angle_1_deg 5.891
r_angle_refined_deg 1.343
r_mcbond_it 0.657
r_dihedral_angle_4_deg 19.244
r_scbond_it 2.184
r_dihedral_angle_3_deg 12.131
r_scangle_it 3.647
r_dihedral_angle_2_deg 35.409
r_chiral_restr 0.092
r_gen_planes_refined 0.006
r_mcangle_it 1.204
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5467
Nucleic Acid Atoms 0
Heterogen Atoms 91
Solvent Atoms 332

Software

Software
Software Name Purpose
SSRL data collection version: WebIce
SOLVE phasing
REFMAC refinement version: 5.5.0088
HKL-2000 data reduction
HKL-2000 data scaling