X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.1
Temperature 289.0
Details 0.49 M sodium phosphate, 0.91 M di-potassium phosphate, pH 7.1, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.24 α = 90
b = 58.63 β = 90
c = 115.87 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 315r -- 2010-08-25
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID

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
2.36 32.3 95.2 0.098 -- -- 3.6 5992 5992 0.0 0.0 68.7
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)
2.38 2.42 88.3 0.587 -- 2.02 2.5 265

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 2.36 32.27 0.0 0.0 5992 5992 278 94.33 0.2474 0.2474 0.2458 0.2809 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 2.362 2.423 366 15 351 0.358 0.373 -- 79.39
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 81.4788
Anisotropic B[1][1] 1.64
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.48
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.84
RMS Deviations
Key Refinement Restraint Deviation
f_gen_planes_other 0.001
f_gen_planes_refined 0.005
f_chiral_restr 0.07
f_dihedral_angle_4_deg 11.195
f_dihedral_angle_3_deg 20.52
f_dihedral_angle_2_deg 34.974
f_dihedral_angle_1_deg 6.362
f_angle_other_deg 0.771
f_angle_refined_deg 1.611
f_bond_other_d 0.001
f_bond_refined_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 678
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 4

Software

Computing
Computing Package Purpose
SBC-collect Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
MOLREP, HKL3000 Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.7.0029 refinement
HKL data reduction