X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 14% PEG4000, 0.15M NAAC, 0.1M IMIDAZOLE PH 7.5, 10MM MG-UDP, 10MM G6P

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.61 α = 90
b = 125.4 β = 90
c = 176.61 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 -- 2001-11-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
2.45 20 99.9 0.056 -- -- 2.8 -- 86205 -- -- --
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)
2.45 2.54 99.5 0.436 -- 2.4 2.3 --

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
MAD 2.43 100.0 -- -- -- 81873 4320 99.3 -- 0.207 0.206 0.228 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 2.44 2.5 -- 292 5728 0.284 0.321 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.54
Anisotropic B[1][1] -0.94
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.47
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.145
r_scangle_it 3.087
r_mcbond_it 0.502
r_dihedral_angle_1_deg 6.415
r_nbd_refined 0.23
r_symmetry_vdw_refined 0.466
r_mcangle_it 0.948
r_scbond_it 2.037
r_angle_refined_deg 1.81
r_symmetry_hbond_refined 0.523
r_bond_refined_d 0.019
r_gen_planes_refined 0.007
r_xyhbond_nbd_refined 0.154
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14606
Nucleic Acid Atoms 0
Heterogen Atoms 184
Solvent Atoms 288

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling