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_xyhbond_nbd 0.071
p_bond_d 0.024
p_mcangle_it 2.8
p_angle_d 0.033
p_planar_tor 5.3
p_special_tor 0.0
p_scbond_it 3.384
p_transverse_tor 17.8
p_hb_or_metal_coord 0.059
p_chiral_restr 0.138
p_xhyhbond_nbd 0.0
p_mcbond_it 2.405
p_scangle_it 4.29
p_multtor_nbd 0.278
p_staggered_tor 11.2
p_planar_d 0.035
p_singtor_nbd 0.165
p_plane_restr 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 674
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 200

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
REFMAC refinement