X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.2
Temperature 298.0
Details 30%( w/v) PEG 8K and 200mM Ammonium sulfate, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.56 α = 90
b = 85.56 β = 90
c = 50.2 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2008-03-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.5418 NSLS X29A

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
1.7 50 95.0 -- -- -- -- 22014 n/a 1.0 1.0 --

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
MOLECULAR REPLACEMENT 1.761 29.809 -- 0.12 -- 20017 1930 95.83 -- 0.2268 0.2244 0.2494 --
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 1.7608 1.8048 -- 122 1056 0.2374 0.2937 -- 78.0
X Ray Diffraction 1.8048 1.8536 -- 129 1190 0.1991 0.2587 -- 91.0
X Ray Diffraction 1.8536 1.9081 -- 132 1275 0.1953 0.2172 -- 93.0
X Ray Diffraction 1.9081 1.9697 -- 134 1258 0.1925 0.2305 -- 95.0
X Ray Diffraction 1.9697 2.0401 -- 141 1301 0.1992 0.2524 -- 97.0
X Ray Diffraction 2.0401 2.1217 -- 136 1286 0.2154 0.2714 -- 96.0
X Ray Diffraction 2.1217 2.2183 -- 143 1309 0.2136 0.2391 -- 98.0
X Ray Diffraction 2.2183 2.3352 -- 137 1319 0.2187 0.2408 -- 98.0
X Ray Diffraction 2.3352 2.4814 -- 143 1335 0.2283 0.2584 -- 99.0
X Ray Diffraction 2.4814 2.6729 -- 140 1331 0.2448 0.2487 -- 98.0
X Ray Diffraction 2.6729 2.9417 -- 145 1336 0.2305 0.2601 -- 99.0
X Ray Diffraction 2.9417 3.3668 -- 141 1338 0.2368 0.2844 -- 100.0
X Ray Diffraction 3.3668 4.2399 -- 145 1366 0.2096 0.2195 -- 100.0
X Ray Diffraction 4.2399 29.8132 -- 142 1387 0.236 0.2402 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.0211
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0211
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.0422
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.074
f_angle_d 1.118
f_bond_d 0.007
f_dihedral_angle_d 18.154
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1706
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: 1.6_289
SCALEPACK data scaling
MOLREP phasing
CNS refinement
PDB_EXTRACT data extraction version: 3.10
CBASS data collection
HKL-2000 data reduction
HKL-2000 data scaling
DENZO data reduction