X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 298.0
Details Na Acetate, CuSO4, CaCl2, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.39 α = 90
b = 88.29 β = 90
c = 125.85 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 Diamond (111), Ge(220) 2003-02-01
Diffraction Radiation
Monochromator Protocol
Diamond (111), Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.9322 ESRF ID14-1

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
2.15 20 -- 0.073 0.073 -- 6.5 43312 43312 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)
2.15 2.2 99.9 0.47 0.47 1.8 4.8 --

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 2.15 20.0 -- -- 41116 39701 3615 100.0 -- 0.1954 0.18946 0.26001 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 2.15 2.205 -- 273 2871 0.292 0.3 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 57.5
Anisotropic B[1][1] 6.19
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.98
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.2
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.359
r_scangle_it 7.774
r_nbd_refined 0.278
r_mcbond_it 1.832
r_gen_planes_refined 0.013
r_dihedral_angle_1_deg 10.004
r_chiral_restr 0.23
r_mcangle_it 3.294
r_bond_refined_d 0.034
r_xyhbond_nbd_refined 0.22
r_angle_refined_deg 2.685
r_symmetry_vdw_refined 0.258
r_scbond_it 4.863
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5090
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 405

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.80
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
MOLREP phasing