X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details 2.0 M (NH4)2SO4, 100 mM bicine, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.05 α = 90
b = 67.7 β = 99.75
c = 56.14 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 RAYONIX MX225HE -- 2009-05-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9640 SSRF BL17U

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
2.6 55.05 88.6 0.121 -- -- 4.1 9256 n/a -- -- 47.0
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)
2.6 2.69 100.0 -- -- -- -- --

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 2.6 55.05 -- 0.0 9256 9219 470 88.21 -- 0.2505 0.2479 0.2994 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 2.6 2.668 -- 41 713 0.261 0.448 -- 97.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.7233
Anisotropic B[1][1] 4.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.77
Anisotropic B[2][2] -1.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.06
RMS Deviations
Key Refinement Restraint Deviation
r_rigid_bond_restr 1.11
r_bond_refined_d 0.01
r_angle_refined_deg 1.056
r_dihedral_angle_1_deg 5.443
r_dihedral_angle_2_deg 40.967
r_dihedral_angle_3_deg 17.407
r_dihedral_angle_4_deg 16.978
r_chiral_restr 0.071
r_gen_planes_refined 0.004
r_mcbond_it 0.498
r_mcangle_it 0.792
r_scbond_it 1.652
r_scangle_it 2.388
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2226
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 58

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.5.0109 refinement