X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 295.0
Details 28% PEG3350, 7.5mM CaCl2, 100mM Cacodylate buffer, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.67 α = 90
b = 90.78 β = 90
c = 58.99 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2007-07-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 0.97 SSRL BL7-1

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
2.1 45.41 97.9 0.042 -- -- 6.4 -- 5585 -- -- --
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)
2.1 2.18 93.8 0.277 -- -- 3.8 525

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 2.1 45.41 -- 0.0 -- 5572 251 97.69 -- 0.208 0.206 0.257 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 2.102 2.157 -- 15 358 0.277 0.291 -- 88.81
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.161
Anisotropic B[1][1] 0.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.17
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.828
r_dihedral_angle_3_deg 15.668
r_dihedral_angle_2_deg 37.588
r_bond_refined_d 0.014
r_scbond_it 2.377
r_dihedral_angle_1_deg 5.209
r_metal_ion_refined 0.186
r_scangle_it 3.729
r_nbd_refined 0.216
r_gen_planes_refined 0.006
r_symmetry_hbond_refined 0.172
r_nbtor_refined 0.299
r_mcbond_it 0.762
r_symmetry_vdw_refined 0.309
r_dihedral_angle_4_deg 19.951
r_xyhbond_nbd_refined 0.181
r_chiral_restr 0.122
r_mcangle_it 1.09
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 710
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 37

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.006
HKL-2000 data reduction
HKL-2000 data scaling