X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.4
Temperature 294.0
Details 0.1M sodium citrate, 28% PEG 3350, 0.15M lithium sulfate, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.56 α = 90
b = 71.03 β = 103.45
c = 87 γ = 90
Symmetry
Space Group P 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2007-07-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.999 Australian Synchrotron MX1

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
2.7 54.39 99.3 0.083 0.083 -- 3.0 27219 27219 -- -- 51.6
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)
2.7 2.85 99.1 0.33 0.33 3.2 3.0 3940

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 2.7 33.7 -- -- 25849 25849 1368 99.04 0.2564 0.2564 0.2537 0.30726 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 2.7 2.77 -- 108 1861 0.307 0.373 -- 98.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 26.996
Anisotropic B[1][1] 1.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.21
Anisotropic B[2][2] 0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.95
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.114
r_gen_planes_refined 0.002
r_nbd_refined 0.174
r_symmetry_vdw_refined 0.19
r_nbtor_refined 0.296
r_symmetry_hbond_refined 0.134
r_mcbond_it 0.529
r_bond_refined_d 0.006
r_dihedral_angle_3_deg 17.33
r_scangle_it 1.061
r_dihedral_angle_2_deg 33.546
r_angle_refined_deg 0.96
r_xyhbond_nbd_refined 0.128
r_scbond_it 0.663
r_chiral_restr 0.066
r_mcangle_it 0.954
r_dihedral_angle_4_deg 15.472
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5991
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 116

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
Blu-Ice data collection version: ICE
MOSFLM data reduction
SCALA data scaling
PHASER phasing