X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 320.0
Details 2M Na/K phosphate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 320K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.72 α = 90
b = 94.03 β = 90
c = 169.19 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 -- 2002-07-05
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent monochromator (horizontal focusing) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.984 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
1.75 50 95.6 -- 0.074 -- 5.2 126453 126453 0.0 0.0 32.3
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)
1.75 1.78 68.3 -- 0.407 2.4 3.2 --

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 1.75 50.0 0.0 0.0 119708 119708 6410 95.72 0.23062 0.23062 0.22955 0.25086 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 1.75 1.795 -- -- 6684 0.426 0.437 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.197
Anisotropic B[1][1] 1.54
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.81
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.774
r_scangle_it 2.685
r_bond_refined_d 0.014
r_xyhbond_nbd_refined 0.124
r_chiral_restr 0.089
r_nbd_refined 0.221
r_mcbond_it 0.528
r_symmetry_vdw_refined 0.175
r_symmetry_hbond_refined 0.121
r_dihedral_angle_1_deg 6.464
r_mcangle_it 1.053
r_angle_refined_deg 1.3
r_gen_planes_refined 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6586
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 484

Software

Software
Software Name Purpose
HKL-2000 data collection
SCALEPACK data scaling
AMoRE phasing
REFMAC refinement version: 5.1.24
HKL-2000 data reduction