X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details PROTEIN SAMPLES AT 20 MG/ML CRYSTALLISED IN 0.1 M MES, PH 6.5, 10% W/V PWG 20000 AT ROOM TEMPERATURE.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.54 α = 90
b = 82.7 β = 90
c = 137.11 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2007-09-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 -- DIAMOND I04

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
2.45 70.9 82.7 0.1 -- -- 6.3 -- 16989 -- 0.0 47.71
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)
2.45 2.58 32.5 0.7 -- 4.5 6.1 --

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 2.452 44.916 -- 1.38 -- 16984 856 82.7 -- 0.2201 0.2175 0.2672 --
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 2.452 2.6056 -- 51 1134 0.3165 0.4943 -- 35.0
X Ray Diffraction 2.6056 2.8068 -- 114 2192 0.2918 0.3432 -- 68.0
X Ray Diffraction 2.8068 3.0892 -- 150 3040 0.279 0.303 -- 95.0
X Ray Diffraction 3.0892 3.536 -- 185 3168 0.2481 0.2889 -- 99.0
X Ray Diffraction 3.536 4.4544 -- 170 3228 0.1935 0.2444 -- 99.0
X Ray Diffraction 4.4544 44.9233 -- 186 3366 0.184 0.2409 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.45
Anisotropic B[1][1] -1.7993
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.3985
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.4007
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.05
f_dihedral_angle_d 13.714
f_angle_d 0.723
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3844
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 64

Software

Computing
Computing Package Purpose
IMOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHENIX model building