X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 298.0
Details 25% PEG4K;0.2M Ammon. Sulph., pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.35 α = 90
b = 76.35 β = 90
c = 107.4 γ = 120
Symmetry
Space Group P 64 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 -- 2002-04-21
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97945; 0.97934 APS 19-ID

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
2.6 50 99.0 0.071 -- -- 5.0 -- 10742 -- -3.0 --
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)
2.6 2.69 95.8 0.53 -- 2.8 3.0 --

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 2.6 38.07 -- 0.0 -- 5798 280 99.1 -- 0.22976 0.22798 0.2679 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 2.6 2.667 -- 29 393 0.246 0.326 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.957
Anisotropic B[1][1] 2.37
Anisotropic B[1][2] 1.18
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.37
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.55
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.251
r_gen_planes_refined 0.01
r_chiral_restr 0.119
r_dihedral_angle_3_deg 18.079
r_dihedral_angle_1_deg 6.369
r_angle_refined_deg 1.693
r_bond_refined_d 0.011
r_xyhbond_nbd_refined 0.128
r_symmetry_vdw_refined 0.242
r_symmetry_hbond_refined 0.09
r_mcbond_it 1.275
r_mcangle_it 2.397
r_scbond_it 3.879
r_scangle_it 6.475
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 964
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DTCOLLECT; HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.05 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.05 refinement
SOLVE model building
SCALEPACK data reduction
HKL2000 data collection
DTCOLLECT data collection