X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.6
Temperature 277.0
Details 0.2 M Na-acetate, 0.1 M Na-cacodylate, pH 6.5, 30% w/v PEG 8000, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.06 α = 90
b = 46.06 β = 90
c = 100.53 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH 165-mm MAR CCD 2001-05-17
Diffraction Radiation
Monochromator Protocol
Triangular, Bent mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8015 EMBL/DESY, HAMBURG X13

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
1.3 14.89 98.4 -- 0.053 -- 20.25 -- 27067 -- -- --
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)
1.3 1.32 97.6 -- 0.311 3.6 38.68 --

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 1.3 14.684 -- -- -- 25709 1358 98.6 0.157 0.14922 0.14339 0.19034 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 1.3 1.32 -- -- -- -- -- -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.595
Anisotropic B[1][1] 0.4835
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.4835
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0177
RMS Deviations
Key Refinement Restraint Deviation
p_scangle_it 4.29
p_scbond_it 3.384
p_mcangle_it 2.8
p_mcbond_it 2.405
p_transverse_tor 17.8
p_staggered_tor 11.2
p_planar_tor 5.3
p_special_tor 0.0
p_bond_d 0.024
p_angle_d 0.033
p_planar_d 0.035
p_hb_or_metal_coord 0.059
p_plane_restr 0.016
p_chiral_restr 0.138
p_singtor_nbd 0.165
p_multtor_nbd 0.278
p_xyhbond_nbd 0.071
p_xhyhbond_nbd 0.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 668
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 200

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
AMoRE model building
SCALEPACK data reduction
DENZO data collection