X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 295.0
Details 5% PEG8000, 20% PEG300, 10% glycerol, 0.15% mellitic acid, 100 mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.13 α = 90
b = 86.13 β = 90
c = 111.73 γ = 90
Symmetry
Space Group P 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-07-24
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.08090 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
2.1 25 99.9 0.094 0.094 -- 8.2 25331 25306 0.0 -- --
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)
2.096 2.18 99.9 0.712 0.712 4.04 8.1 2471

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 2.096 24.483 -- 1.33 -- 25306 1318 99.79 -- 0.1982 0.1961 0.2366 --
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 2.096 2.1803 -- 169 2574 0.2815 0.3169 -- 100.0
X Ray Diffraction 2.1803 2.2795 -- 151 2603 0.232 0.2505 -- 100.0
X Ray Diffraction 2.2795 2.3996 -- 136 2636 0.2022 0.2451 -- 100.0
X Ray Diffraction 2.3996 2.5498 -- 139 2629 0.1999 0.2195 -- 100.0
X Ray Diffraction 2.5498 2.7464 -- 138 2644 0.1991 0.2548 -- 100.0
X Ray Diffraction 2.7464 3.0223 -- 163 2625 0.2135 0.2495 -- 100.0
X Ray Diffraction 3.0223 3.4586 -- 135 2682 0.1959 0.2285 -- 100.0
X Ray Diffraction 3.4586 4.3535 -- 146 2715 0.1668 0.2046 -- 100.0
X Ray Diffraction 4.3535 24.4845 -- 141 2880 0.19 0.2381 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -11.4827
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -11.4827
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 23.1439
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.056
f_dihedral_angle_d 19.478
f_angle_d 1.121
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1456
Nucleic Acid Atoms 313
Heterogen Atoms 5
Solvent Atoms 131

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
PHASER model building
CBASS data collection