X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 18.0
Details 0.05M Nacacodylate (pH 6.5), 0.05M NaCl, 2.5% PEG 8K, 20% glycerol, 0.3mM n-Nonyl-beta-D-thiomaltoside, 1mM TCEP, VAPOR DIFFUSION, HANGING DROP, temperature 18K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.56 α = 90
b = 204.33 β = 95.86
c = 147.37 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2002-02-10
Diffraction Radiation
Monochromator Protocol
-- SAD
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.05, 1.0, 0.9794 ALS 8.3.1

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
3 50 96.1 -- 0.046 -- 2.2 74391 63958 3.0 3.0 89.4
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)
3.0 3.12 98.5 -- 0.272 3.5 2.2 --

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
SIR, MAD 3.0 20.0 -- 0.0 77075 63958 3379 97.9 0.27132 0.27132 0.26997 0.29633 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 3.0 3.076 -- 238 4566 0.403 0.43 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 62.668
Anisotropic B[1][1] -1.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.27
Anisotropic B[2][2] 2.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.33
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.311
r_dihedral_angle_1_deg 5.735
r_chiral_restr 0.103
r_angle_refined_deg 1.467
r_mcbond_it 0.796
r_xyhbond_nbd_refined 0.21
r_symmetry_vdw_refined 0.343
r_gen_planes_refined 0.007
r_bond_refined_d 0.014
r_symmetry_hbond_refined 0.27
r_scbond_it 2.16
r_mcangle_it 1.533
r_scangle_it 3.767
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18846
Nucleic Acid Atoms 190
Heterogen Atoms 0
Solvent Atoms 41

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
HKL-2000 data reduction
SCALEPACK data scaling
SOLVE phasing
MLPHARE phasing
SHARP phasing