X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 32% PEG 400, 0.1 M HEPES, 40 mM magnesium chloride, 50 mM sodium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 293K, pH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.55 α = 86.91
b = 96.28 β = 80.87
c = 112.28 γ = 74.32
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2009-05-10
Diffraction Radiation
Monochromator Protocol
double crystal monochromator and vertically focusing mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.03324 APS 23-ID-D

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
2.8 20 64.9 0.061 -- -- -- 46613 46613 0.0 0.0 --
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)
2.8 2.9 23.9 -- 0.532 1.3 1.5 --

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 3.1 20.0 -- -- 46613 43231 2301 82.69 -- 0.21629 0.21426 0.25427 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 3.1 3.179 -- 97 1711 0.321 0.329 -- 45.52
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 81.172
Anisotropic B[1][1] -0.56
Anisotropic B[1][2] 0.21
Anisotropic B[1][3] 0.19
Anisotropic B[2][2] 0.63
Anisotropic B[2][3] -0.2
Anisotropic B[3][3] -0.22
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.065
r_gen_planes_refined 0.004
r_scangle_it 0.815
r_dihedral_angle_2_deg 38.357
r_mcangle_it 0.463
r_angle_refined_deg 1.011
r_mcbond_it 0.248
r_dihedral_angle_1_deg 4.655
r_scbond_it 0.45
r_bond_refined_d 0.006
r_dihedral_angle_4_deg 16.953
r_dihedral_angle_3_deg 17.059
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14640
Nucleic Acid Atoms 0
Heterogen Atoms 138
Solvent Atoms 11

Software

Software
Software Name Purpose
HKL-2000 data collection
PHASER phasing
REFMAC refinement version: 5.5.0088
HKL-2000 data reduction
HKL-2000 data scaling