X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details PEG 1000, HEPES, pH 7.5 , VAPOR DIFFUSION, HANGING DROP at 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 144.52 α = 90
b = 144.52 β = 90
c = 108.16 γ = 120
Symmetry
Space Group P 31

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2000-01-26
IMAGE PLATE MARRESEARCH -- 1999-09-26
Diffraction Radiation
Monochromator Protocol
Double crystal focussing monochromator MAD
channel-cut monochromator Si (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM1A 0.9700 ESRF BM1A
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.7400 EMBL/DESY, Hamburg BW7A

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
2.6 50 82.4 -- 0.076 -- 3.3 87368 63971 -- 2.0 29.2
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)
2.6 2.69 65.1 -- 0.31 4.0 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
MOLECULAR REPLACEMENT 2.6 43.34 0.0 0.0 87368 63971 3219 82.3 -- 0.257 0.257 0.296 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 2991 121 2991 0.3 0.358 0.033 21.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 37.4
Anisotropic B[1][1] 4.78
Anisotropic B[1][2] 8.67
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.55
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 23.0
c_improper_angle_d 0.96
c_mcangle_it 5.44
c_bond_d 0.008
c_angle_deg 1.4
c_scbond_it 5.7
c_scangle_it 7.29
c_mcbond_it 3.67
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.37
Luzzati Sigma A (Observed) 0.29
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.46
Luzzati Sigma A (R-Free Set) 0.4
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16020
Nucleic Acid Atoms 0
Heterogen Atoms 348
Solvent Atoms 154

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
CNS refinement version: 1.0