X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.4
Temperature 293.0
Details Soaking in 30mM ATP, 40% PEG 2000, 10 mM ammonium sulphate, 0.1 M MES pH 5.4, 25 mM magnesium acetate, 2 mM mercaptoethanol, 3 mM EDTA, 1.5 mM DTT, VAPOR DIFFUSION, HANGING DROP + SOAKING

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.25 α = 90
b = 76.25 β = 90
c = 135.11 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2001-05-15
Diffraction Radiation
Monochromator Protocol
Silicon SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A 0.90 ESRF BM30A

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
1.85 24.96 94.1 -- 0.055 -- 4.7 19063 19063 0.0 -3.0 16.6
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)
1.85 1.95 94.1 -- 0.316 2.3 4.6 2788

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
OTHER 1.85 24.96 -- 0.0 19047 19047 929 92.6 0.215 0.215 0.215 0.226 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 1.85 1.97 3026 152 3026 0.254 0.27 0.022 95.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 19.2
Anisotropic B[1][1] 1.88
Anisotropic B[1][2] 2.08
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.88
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.77
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 1.04
c_bond_d 0.005
c_improper_angle_d 0.73
c_angle_deg 1.1
c_scbond_it 2.89
c_scangle_it 3.66
c_dihedral_angle_d 20.8
c_mcangle_it 1.5
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.14
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.25
Luzzati Sigma A (R-Free Set) 0.19
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1546
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 156

Software

Software
Software Name Purpose
DENZO data reduction
SCALA data scaling
CNS refinement version: 1.0
CCP4 data scaling version: (SCALA)
CNS phasing version: 1.0