X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 277.0
Details 1.6-1.8M AMMONIUM SULFATE, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.14 α = 90
b = 63.6 β = 90
c = 115.86 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-12-14
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL40B2 1.0000 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
1.55 27.12 97.7 -- 0.035 -- 7.1 61882 60415 -- 0.0 20.27
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)
1.548 1.61 86.6 -- 0.292 1.5 6.7 5411

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 1.55 15.0 -- 0.0 -- 58534 3127 97.85 -- 0.20216 0.20124 0.21906 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 1.55 1.59 -- 196 3676 0.296 0.296 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.957
Anisotropic B[1][1] 2.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.6
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.187
r_scbond_it 3.766
r_dihedral_angle_1_deg 4.293
r_nbd_refined 0.248
r_symmetry_hbond_refined 0.228
r_gen_planes_refined 0.008
r_mcbond_it 1.122
r_scangle_it 5.783
r_dihedral_angle_2_deg 16.658
r_bond_refined_d 0.022
r_mcangle_it 2.05
r_angle_refined_deg 1.862
r_chiral_restr 0.119
r_symmetry_vdw_refined 0.235
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2796
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 390

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MLPHARE phasing
REFMAC refinement version: 5.0