X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details Tris/HCl, MgSO4, NaCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.22 α = 90
b = 100.86 β = 90
c = 87.74 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 111
2 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-01-30
CCD ADSC QUANTUM 4 -- 2001-10-01
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
fixed-exit double crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.978 Photon Factory BL-6A
SYNCHROTRON SPRING-8 BEAMLINE BL40B2 0.9796, 0.9798, 0.9721, 0.9862 SPring-8 BL40B2

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
2.2 35.6 100.0 0.053 0.053 -- 7.2 32808 32808 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)
2.2 2.32 100.0 0.235 0.265 0.265 7.3 4689

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
MAD 2.2 87.71 -- -- 31092 31080 1676 99.9 0.21907 0.21907 0.21763 0.24527 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 2.2 2.257 -- 118 2237 0.252 0.343 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.122
Anisotropic B[1][1] -0.91
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.97
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.725
r_chiral_restr 0.078
r_nbd_refined 0.354
r_gen_planes_refined 0.005
r_bond_refined_d 0.011
r_mcangle_it 1.087
r_scbond_it 1.521
r_symmetry_vdw_refined 0.109
r_symmetry_hbond_refined 0.455
r_nbd_other 0.2
r_dihedral_angle_1_deg 4.872
r_symmetry_vdw_other 0.196
r_mcbond_it 0.58
r_xyhbond_nbd_other 0.002
r_bond_other_d 0.001
r_gen_planes_other 0.002
r_angle_refined_deg 1.334
r_dihedral_angle_2_deg 20.427
r_xyhbond_nbd_refined 0.173
r_scangle_it 2.593
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4436
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 128

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
SHARP phasing
REFMAC refinement version: 5.0
CCP4 data scaling version: (SCALA)