X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 292.0
Details ammonium sulfate, magnesium chloride, spermidine, tris-hydrogen chloride, pH 7.5, VAPOR DIFFUSION, SITTING DROP at 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 30.17 α = 90
b = 62.51 β = 98.76
c = 50.93 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 193
2 193
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC focusing mirrors 2001-01-31
CCD CUSTOM-MADE -- 2001-04-13
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
focusing mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 0.91939 NSLS X25
ROTATING ANODE RIGAKU RU200 1.5418 -- --

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
2.5 15 98.6 -- 0.128 -- 17.69 -- 3220 -- 1.0 57.5
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)
2.5 -- 98.7 -- 0.342 2.55 4.59 307

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 2.5 15.0 -- 2.0 3217 3011 252 93.6 -- 0.243 0.2391 0.27 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 2.5 2.66 -- 31 359 0.404 0.335 0.06 78.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 55.8
Anisotropic B[1][1] 6.17
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 20.29
Anisotropic B[2][2] 5.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.46
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 1.46
c_dihedral_angle_d 14.0
c_angle_deg 1.08
c_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.42
Luzzati Sigma A (Observed) 0.59
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.49
Luzzati Sigma A (R-Free Set) 0.57
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 548
Heterogen Atoms 1
Solvent Atoms 21

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
CNS phasing