X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 298.0
Details PEG 4000, SODIUM CITRATE, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.09 α = 90
b = 32.5 β = 90.71
c = 72.5 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2006-11-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 0.92 SRS PX9.6

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
1.6 30 99.0 -- 0.055 -- 8.1 31270 30942 0.0 -3.0 17.4
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)
1.6 1.64 98.2 -- 0.187 6.7 2.7 1527

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
FOURIER SYNTHESIS 1.6 30.0 -- 0.0 31270 29373 1562 98.93 -- 0.18016 0.17861 0.20937 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 1.6 1.641 -- 120 2120 0.206 0.254 -- 97.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.207
Anisotropic B[1][1] -0.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.03
Anisotropic B[2][2] 0.48
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.4
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 34.14
r_xyhbond_nbd_refined 0.127
r_symmetry_hbond_refined 0.106
r_bond_refined_d 0.008
r_dihedral_angle_3_deg 10.404
r_symmetry_vdw_refined 0.165
r_gen_planes_refined 0.004
r_dihedral_angle_4_deg 11.274
r_mcangle_it 0.879
r_scbond_it 1.319
r_dihedral_angle_1_deg 5.593
r_angle_refined_deg 1.443
r_nbtor_refined 0.295
r_chiral_restr 0.145
r_mcbond_it 0.513
r_nbd_refined 0.186
r_scangle_it 2.158
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.099
Luzzati ESD (R-Free Set) 0.096
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1902
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 369

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection version: Quantum
DENZO data reduction
SCALEPACK data scaling
REFMAC phasing