X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.6
Details 25% PEG 2000 MME, 0.3M SODIUM FORMATE, 50 MM SODIUM HEPES PH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.39 α = 90
b = 50.31 β = 101.35
c = 111.39 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD MIRRORS 2001-10-15
Diffraction Radiation
Monochromator Protocol
SI(111) 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
2.85 20 99.7 0.085 -- -- 3.5 -- 27211 -- 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)
2.85 2.9 97.3 0.442 -- 1.1 3.0 --

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 2.85 111.8 -- -- -- 25841 1362 99.1 -- 0.209 0.205 0.273 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 2.85 2.93 -- 79 1841 0.302 0.353 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.97
Anisotropic B[1][1] -4.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.18
Anisotropic B[2][2] 4.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.02
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.02
r_nbtor_other 0.101
r_gen_planes_other 0.003
r_nbd_other 0.25
r_bond_other_d 0.003
r_mcbond_it 0.65
r_scangle_it 2.78
r_symmetry_vdw_other 0.257
r_dihedral_angle_1_deg 7.222
r_chiral_restr 0.094
r_symmetry_vdw_refined 0.183
r_gen_planes_refined 0.006
r_angle_refined_deg 1.931
r_symmetry_hbond_refined 0.151
r_nbd_refined 0.245
r_mcangle_it 1.247
r_scbond_it 1.618
r_angle_other_deg 1.019
r_xyhbond_nbd_refined 0.189
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7712
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.13
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing