X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 5.6
Temperature 291.0
Details tri-Na-citrate, isopropanol, PEG 4000, pH 5.6, VAPOR DIFFUSION, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.63 α = 90
b = 118.43 β = 90
c = 92 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-10-11
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM1A 0.873 ESRF BM1A

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
1.74 14.93 98.5 -- -- -- -- 84588 84597 0.0 0.0 15.1
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)
1.74 1.77 78.8 -- -- -- -- --

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 1.74 14.93 -- 0.0 85209 84497 6853 99.2 0.185 0.185 0.184 0.204 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 1.74 1.82 10034 852 9182 0.217 0.216 0.007 95.3
X Ray Diffraction 1.82 1.91 10447 872 9575 0.2 0.199 0.007 98.7
X Ray Diffraction 1.91 2.03 10502 859 9643 0.196 0.197 0.007 99.5
X Ray Diffraction 2.03 2.19 10563 837 9726 0.181 0.183 0.006 99.8
X Ray Diffraction 2.19 2.41 10574 835 9739 0.182 0.182 0.006 99.8
X Ray Diffraction 2.41 2.76 10665 885 9780 0.185 0.184 0.006 99.9
X Ray Diffraction 2.76 3.47 10707 851 9856 0.186 0.187 0.006 99.9
X Ray Diffraction 3.47 14.93 11005 862 10143 0.17 0.17 0.006 99.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.54
Anisotropic B[1][1] -3.97
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 11.22
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.25
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.71
x_torsion_deg 25.1
x_angle_deg 1.3
x_bond_d 0.004
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Luzzati Sigma A (Observed) 0.11
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.19
Luzzati Sigma A (R-Free Set) 0.14
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4297
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 592

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement