X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 12-14 % PEG 6000, 150-300 MM NACL 25 MM HEPES PH 7-8, 10 MM MGCL2, 100-150 MICROM ADP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.38 α = 90
b = 91.72 β = 90
c = 259.69 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 CCD MIRRORS 2001-12-15
Diffraction Radiation
Monochromator Protocol
GE 220 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
2.9 25 98.3 0.124 -- -- 6.7 -- 47871 -- -- --
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)
2.9 3.0 92.4 0.725 -- 2.2 2.7 --

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 2.9 15.0 -- -- -- 44850 2360 98.7 -- 0.221 0.217 0.292 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 2.9 2.97 -- 160 3021 0.304 0.397 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.05
Anisotropic B[1][1] -3.99
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 8.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.21
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.276
r_scangle_it 1.635
r_xyhbond_nbd_refined 0.18
r_nbd_refined 0.212
r_bond_refined_d 0.01
r_scbond_it 0.917
r_nbtor_other 0.086
r_angle_other_deg 0.817
r_gen_planes_other 0.002
r_gen_planes_refined 0.003
r_mcbond_it 0.325
r_symmetry_vdw_other 0.248
r_nbd_other 0.222
r_chiral_restr 0.063
r_angle_refined_deg 1.259
r_bond_other_d 0.002
r_symmetry_vdw_refined 0.204
r_symmetry_hbond_refined 0.155
r_mcangle_it 0.631
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12171
Nucleic Acid Atoms 569
Heterogen Atoms 28
Solvent Atoms 137

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling