X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details 1.8M AMMONIUM SULFATE, 0.1M TRIS PH 8.5, 0.05M ASCORBIC ACID, VAPOR DIFFUSION, TEMPERATURE 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.49 α = 90
b = 73.67 β = 90
c = 80.26 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 -- 2008-09-28
Diffraction Radiation
Monochromator Protocol
SI111 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 50 99.7 0.15 -- -- 4.8 -- 29194 -- -3.0 28.164
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)
2.0 2.05 99.7 0.58 -- 3.3 4.8 --

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 2.0 54.31 -- -- -- 27682 1478 99.79 -- 0.17382 0.17061 0.23564 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 2.0 2.052 -- 111 1973 0.196 0.309 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.623
Anisotropic B[1][1] -0.09
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.42
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.378
r_scbond_it 2.913
r_mcangle_it 1.864
r_mcbond_it 1.036
r_nbd_refined 0.225
r_gen_planes_refined 0.008
r_chiral_restr 0.137
r_dihedral_angle_4_deg 21.907
r_dihedral_angle_3_deg 16.67
r_dihedral_angle_2_deg 34.331
r_dihedral_angle_1_deg 7.112
r_angle_refined_deg 1.882
r_bond_refined_d 0.018
r_nbtor_refined 0.309
r_xyhbond_nbd_refined 0.239
r_symmetry_vdw_refined 0.305
r_symmetry_hbond_refined 0.321
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3593
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 269

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
PHASER model building