X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.4
Temperature 293.0
Details 0.3 M sodium potassium tartrate, 0.5 M bicine buffer , 1cmc D-octylglucopyranoside, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.01 α = 90
b = 108.01 β = 90
c = 224.96 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
AREA DETECTOR MARRESEARCH -- 2000-04-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A 0.98064 ESRF BM30A

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
2.52 58.51 99.14 -- 0.067 -- 7.4 27024 26791 0.0 0.0 73.99

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 2.5201 52.513 0.0 1.4 27024 26778 1350 99.1 -- 0.2135 0.2121 0.2376 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 2.5201 2.6102 -- 110 2407 0.3377 0.3414 -- 96.0
X Ray Diffraction 2.6102 2.7147 -- 132 2510 0.2825 0.3421 -- 99.0
X Ray Diffraction 2.7147 2.8382 -- 133 2483 0.2593 0.2893 -- 99.0
X Ray Diffraction 2.8382 2.9878 -- 157 2449 0.2242 0.2872 -- 99.0
X Ray Diffraction 2.9878 3.175 -- 125 2505 0.2177 0.2658 -- 99.0
X Ray Diffraction 3.175 3.4201 -- 125 2536 0.2154 0.2636 -- 100.0
X Ray Diffraction 3.4201 3.7642 -- 120 2577 0.1992 0.2434 -- 100.0
X Ray Diffraction 3.7642 4.3087 -- 156 2558 0.1859 0.2265 -- 100.0
X Ray Diffraction 4.3087 5.4276 -- 141 2630 0.1753 0.1923 -- 100.0
X Ray Diffraction 5.4276 52.5244 -- 151 2773 0.2315 0.2268 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 83.287
Anisotropic B[1][1] -6.1391
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.1391
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 12.2782
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 13.947
f_plane_restr 0.005
f_chiral_restr 0.07
f_angle_d 0.977
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2724
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 44

Software

Computing
Computing Package Purpose
MOSFLM Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement