X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.8
Temperature 293.0
Details Ammonium sulfate, PEG 200, sodium citrate, pH 5.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 138.65 α = 90
b = 78.65 β = 91.97
c = 32.9 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-04-12
Diffraction Radiation
Monochromator Protocol
2-crystal monochromator, Si111, 1m long Rh coated bent cylindrical mirror for horizontal and vertical focussing SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL1-5 1.071 SSRL BL1-5

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 40 99.7 0.045 -- -- 7.2 253851 253092 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)
1.755 1.8 99.1 0.515 -- 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
MAD 1.755 34.71 -- 0.0 35113 33364 1749 99.3 0.18438 0.18438 0.18201 0.22926 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 1.755 1.8 -- 124 2350 0.222 0.256 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.498
Anisotropic B[1][1] 0.78
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.9
Anisotropic B[2][2] 0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.91
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.2
r_scbond_it 2.833
r_mcangle_it 2.393
r_mcbond_it 1.398
r_symmetry_hbond_refined 0.126
r_symmetry_vdw_other 0.308
r_symmetry_vdw_refined 0.126
r_bond_refined_d 0.021
r_bond_other_d 0.002
r_angle_refined_deg 1.897
r_angle_other_deg 0.932
r_dihedral_angle_1_deg 7.836
r_chiral_restr 0.12
r_gen_planes_refined 0.009
r_gen_planes_other 0.002
r_nbd_refined 0.227
r_nbd_other 0.263
r_nbtor_other 0.088
r_xyhbond_nbd_refined 0.157
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2730
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 339

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement