X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 100MM HEPES PH 7.5, 10MM SPERMIDINE, 1.1M SODIUM POTASSIUM TARTRATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.5 α = 90
b = 154.58 β = 90
c = 156.41 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 MARRESEARCH VERTICALLY FOCUSING MIRROR. 2007-09-30
Diffraction Radiation
Monochromator Protocol
DCM WITH CRYO-COOLED 1ST CRYSTAL SAGITTALLY BENT 2ND SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 -- CLSI 08ID-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
2.49 40 99.9 0.06 -- -- 7.4 -- 50530 -- -3.0 41.4
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)
2.49 2.58 100.0 0.41 -- 4.96 7.4 --

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 2.49 39.13 -- -- -- 48835 1576 99.88 -- 0.2037 0.20214 0.2536 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 2.49 2.554 -- 109 3348 0.285 0.367 -- 99.97
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.108
Anisotropic B[1][1] 0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.98
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.92
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.46
r_angle_refined_deg 1.053
r_angle_other_deg 0.767
r_dihedral_angle_3_deg 13.675
r_bond_other_d 0.001
r_bond_refined_d 0.007
r_gen_planes_refined 0.004
r_gen_planes_other 0.001
r_dihedral_angle_4_deg 15.855
r_dihedral_angle_2_deg 36.136
r_chiral_restr 0.059
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7815
Nucleic Acid Atoms 0
Heterogen Atoms 39
Solvent Atoms 378

Software

Software
Software Name Purpose
REFMAC refinement version: 5.6.0117
HKL-2000 data reduction
SCALEPACK data scaling
PHASER phasing