X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 2.5 M POTASSIUM PHOSPHATE PH 6.3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.25 α = 90
b = 118.25 β = 90
c = 85.22 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2002-05-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 -- 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
1.6 20 96.3 0.069 -- -- 5.2 -- 85935 -- -- --
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)
1.6 1.65 95.5 0.28 -- 2.7 4.9 --

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 1.6 19.92 -- -- -- 81223 4312 100.0 -- 0.203 0.201 0.229 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 1.6 1.64 -- 311 5958 0.261 0.287 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.11
Anisotropic B[1][1] 1.03
Anisotropic B[1][2] 0.52
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.55
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.178
r_nbd_refined 0.241
r_angle_refined_deg 1.837
r_bond_refined_d 0.019
r_symmetry_hbond_refined 0.331
r_dihedral_angle_2_deg 37.378
r_mcangle_it 1.922
r_scbond_it 2.986
r_scangle_it 4.855
r_mcbond_it 1.078
r_gen_planes_refined 0.009
r_dihedral_angle_1_deg 6.365
r_symmetry_vdw_refined 0.612
r_chiral_restr 0.137
r_dihedral_angle_3_deg 15.077
r_dihedral_angle_4_deg 18.432
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4164
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 656

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.08
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing