X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details PROTEIN WAS CRYSTALLIZED FROM 31-33 % PEG 300, 100 MM NACL AND 100 MM NA-PHOSPHATE (PH 7.0), THAN SOAKED FOR 1 MINUTE IN 2.5 MM METHYL MERCURY ACETATE.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.7 α = 90
b = 109.14 β = 90
c = 113.82 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 MARRESEARCH MIRRORS 2004-02-10
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

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
2.85 30 94.0 0.12 -- -- 2.9 -- 22414 -- -2.5 72.32
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)
2.85 2.95 81.0 0.77 -- 1.0 2.3 --

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
MIRAS 2.85 29.014 -- 1.89 -- 39346 1981 87.96 -- 0.2362 0.2338 0.2809 --
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 2.85 2.9212 -- 102 1983 0.354 0.4117 -- 66.0
X Ray Diffraction 2.9212 3.0001 -- 151 2202 0.3299 0.3475 -- 73.0
X Ray Diffraction 3.0001 3.0883 -- 117 2336 0.3063 0.4129 -- 77.0
X Ray Diffraction 3.0883 3.1879 -- 107 2565 0.3033 0.3695 -- 83.0
X Ray Diffraction 3.1879 3.3017 -- 135 2776 0.2696 0.2831 -- 91.0
X Ray Diffraction 3.3017 3.4337 -- 152 2805 0.247 0.2943 -- 93.0
X Ray Diffraction 3.4337 3.5897 -- 131 2834 0.2279 0.2843 -- 93.0
X Ray Diffraction 3.5897 3.7785 -- 127 2849 0.2046 0.2573 -- 92.0
X Ray Diffraction 3.7785 4.0147 -- 173 2791 0.1891 0.2191 -- 93.0
X Ray Diffraction 4.0147 4.3238 -- 149 2841 0.1722 0.208 -- 93.0
X Ray Diffraction 4.3238 4.7572 -- 164 2816 0.1656 0.2411 -- 93.0
X Ray Diffraction 4.7572 5.4416 -- 148 2868 0.1802 0.2825 -- 94.0
X Ray Diffraction 5.4416 6.841 -- 179 2836 0.2194 0.2723 -- 94.0
X Ray Diffraction 6.841 29.015 -- 146 2863 0.2492 0.2693 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 2.9434
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -11.3656
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.4222
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.01
f_chiral_restr 0.09
f_plane_restr 0.0
f_angle_d 1.48
f_dihedral_angle_d 19.71
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3569
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
DENZO data reduction
SCALEPACK data scaling
SHARP phasing