X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 5.3
Temperature 293.0
Details 50mM citrate, 0.1M ammonium sulfate, 0.1mM CaCl2, 0.1mM ATP, 10% PEG8000, pH 5.3, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 180.74 α = 90
b = 180.74 β = 90
c = 382.28 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- 2009-04-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0 SPring-8 BL41XU

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
3.45 76.72 83.9 -- -- -- -- -- 41449 -- -- --
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)
3.45 3.64 13.8 -- -- -- -- --

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 3.45 68.7 -- 0.0 -- 41448 2080 84.28 -- 0.2268 0.2244 0.2733 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 3.455 3.544 -- 9 165 0.29 0.448 -- 4.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 153.243
Anisotropic B[1][1] 0.09
Anisotropic B[1][2] 0.05
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.14
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_dihedral_angle_3_deg 16.362
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 33.809
r_angle_refined_deg 1.729
r_dihedral_angle_1_deg 6.784
r_dihedral_angle_4_deg 22.248
r_chiral_restr 0.105
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14453
Nucleic Acid Atoms 0
Heterogen Atoms 160
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.6.0117
PDB_EXTRACT data extraction version: 3.10
MOSFLM data reduction
SCALA data scaling