X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 6
Temperature 293.0
Details 10% PEG-6000, 0.1M MES pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.37 α = 90
b = 126.12 β = 90
c = 138.37 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 flat mirror 2002-06-12
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

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
2.5 38.29 99.2 -- 0.081 -- 4.3 29194 29194 -- -- 63.66
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)
2.5 2.57 93.2 -- 0.546 2.0 3.9 2002

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 2.5 38.29 -- 0.0 -- 27683 1510 98.96 -- 0.216 0.21295 0.27225 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 2.501 2.566 -- 114 1886 0.33 0.375 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 37.427
Anisotropic B[1][1] 3.48
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.4
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.88
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.178
r_xyhbond_nbd_refined 0.182
r_dihedral_angle_4_deg 19.228
r_symmetry_vdw_refined 0.254
r_mcbond_it 0.728
r_scangle_it 3.795
r_bond_other_d 0.001
r_scbond_it 2.092
r_symmetry_hbond_refined 0.188
r_symmetry_vdw_other 0.296
r_chiral_restr 0.084
r_gen_planes_refined 0.005
r_nbtor_other 0.089
r_angle_other_deg 0.835
r_dihedral_angle_2_deg 39.854
r_bond_refined_d 0.017
r_dihedral_angle_1_deg 6.607
r_mcangle_it 1.388
r_nbd_refined 0.225
r_angle_refined_deg 1.516
r_gen_planes_other 0.001
r_dihedral_angle_3_deg 17.661
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4074
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 113

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 4.2)
MOLREP phasing
REFMAC(5.1.9999) refinement
CCP4 data scaling version: (SCALA)
REFMAC refinement version: 5.1.9999