X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 21 mg/mL protein incubated with 10 mM 4-ntirophenolphosphate well solution: 0.1M Tris pH 8.5, 0.2M magnesium chloride, 20% w/v polyethylene glycol 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.82 α = 90
b = 49.63 β = 94.88
c = 39.9 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2013-02-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

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
1.34 50 95.5 -- 0.035 -- 3.7 -- 37336 -- -- --
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)
1.34 1.36 78.8 0.315 -- 4.2 2.5 --

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 1.34 44.77 -- -- -- 35466 1864 95.29 -- 0.14151 0.14028 0.16499 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 1.342 1.377 -- 122 2145 0.294 0.286 -- 78.88
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.159
Anisotropic B[1][1] -0.24
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.56
Anisotropic B[2][2] 0.13
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.21
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.896
r_chiral_restr 0.07
r_mcbond_it 1.143
r_mcbond_other 0.334
r_rigid_bond_restr 0.953
r_dihedral_angle_4_deg 16.787
r_angle_refined_deg 1.308
r_gen_planes_other 0.001
r_scbond_it 2.648
r_bond_refined_d 0.009
r_dihedral_angle_3_deg 11.131
r_scangle_it 4.139
r_dihedral_angle_2_deg 36.402
r_angle_other_deg 0.865
r_gen_planes_refined 0.007
r_dihedral_angle_1_deg 5.744
r_bond_other_d 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1226
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 193

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0104