X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 293.0
Details 19% PEG10K, 100 mM Na-acetate pH 4.6, SrCl2 20mM, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.58 α = 90
b = 71.22 β = 111.62
c = 48.78 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2009-04-17
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.976250 ESRF ID23-1

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
2.25 45.36 96.8 0.092 0.092 -- 3.5 12342 11947 2.6 2.6 36.5
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)
2.25 2.37 96.2 0.485 0.485 2.6 3.5 1726

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 2.25 45.35 2.6 -- 12342 11347 592 96.74 0.22381 0.22381 0.22079 0.28474 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 2.25 2.308 1726 37 837 0.375 0.41 -- 96.15
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 40.997
Anisotropic B[1][1] 5.93
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 3.1
Anisotropic B[2][2] -2.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.88
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.015
r_scbond_it 2.495
r_dihedral_angle_1_deg 5.816
r_angle_refined_deg 1.507
r_gen_planes_refined 0.006
r_mcbond_it 0.816
r_dihedral_angle_2_deg 34.55
r_scangle_it 4.254
r_dihedral_angle_3_deg 18.698
r_dihedral_angle_4_deg 16.455
r_chiral_restr 0.092
r_mcangle_it 1.566
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.272
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1908
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 21

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASER phasing
REFMAC refinement version: 5.5.0110
MOSFLM data reduction
SCALA data scaling