X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 295.0
Details 23-26 % (w/v) PEG 4000, 100 mM Na citrate, pH 5.6, 210-250 mM ammonium acetate, and 100 mM cesium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.04 α = 90
b = 61.95 β = 97.01
c = 175.87 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-05-20
Diffraction Radiation
Monochromator Protocol
Flat mirror (vertical focusing) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 1.0024 SSRL BL9-1

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
2.3 49.83 99.2 -- 0.084 -- -- 97443 86087 0.0 1.0 27.9
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)
2.4 2.53 98.3 -- 0.368 2.0 -- --

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 2.4 49.83 -- 0.0 86841 86087 8627 99.1 0.22 0.27 0.22 0.273 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 2.4 2.51 10555 1103 9452 0.273 0.335 0.01 97.9
X Ray Diffraction 2.51 2.64 10579 1035 9544 0.264 0.328 0.01 98.3
X Ray Diffraction 2.64 2.81 10678 1054 9624 0.248 0.311 0.01 98.8
X Ray Diffraction 2.81 3.02 10734 1105 9629 0.247 0.305 0.009 99.4
X Ray Diffraction 3.02 3.33 10801 1074 9727 0.236 0.29 0.009 99.6
X Ray Diffraction 3.33 3.81 10832 1100 9732 0.218 0.259 0.008 99.7
X Ray Diffraction 3.81 4.8 10871 1057 9814 0.181 0.237 0.007 99.6
X Ray Diffraction 4.8 49.83 11037 1099 9938 0.201 0.245 0.007 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 33.68
Anisotropic B[1][1] 4.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.04
Anisotropic B[2][2] -5.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.87
RMS Deviations
Key Refinement Restraint Deviation
c_torsion_impr_deg 0.72
c_angle_deg 1.1
c_bond_d 0.006
c_torsion_deg 22.8
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.29
Luzzati Sigma A (Observed) 0.28
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.37
Luzzati Sigma A (R-Free Set) 0.38
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15704
Nucleic Acid Atoms 0
Heterogen Atoms 176
Solvent Atoms 399

Software

Software
Software Name Purpose
CNS refinement version: 1.1
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
MOLREP phasing