X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 293.0
Details 0.1 M SODIUM ACETATE, 1.5 M AMMONIUM SULFATE, PH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 125.85 α = 90
b = 125.85 β = 90
c = 116.37 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r MIRRORS 2009-06-11
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97918 APS 19-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
2.35 50 94.9 0.089 0.089 -- 6.9 97986 97986 0.0 -3.0 45.6
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)
2.35 2.39 100.0 0.498 0.498 5.677 7.2 --

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 2.4 50.0 -- 0.0 -- 13237 656 94.43 -- 0.18 0.177 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 2.401 2.463 -- 57 962 0.231 0.288 -- 98.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 66.322
Anisotropic B[1][1] -1.85
Anisotropic B[1][2] -0.92
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.85
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.77
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.578
r_bond_other_d 0.001
r_dihedral_angle_2_deg 41.249
r_mcangle_it 1.442
r_scbond_it 2.585
r_bond_refined_d 0.019
r_mcbond_other 0.183
r_angle_refined_deg 1.786
r_gen_planes_other 0.001
r_chiral_restr 0.094
r_angle_other_deg 0.967
r_dihedral_angle_3_deg 17.161
r_scangle_it 3.924
r_gen_planes_refined 0.01
r_mcbond_it 0.786
r_dihedral_angle_4_deg 17.908
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1808
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 14

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.006
HKL-3000 data collection
HKL-3000 data reduction
HKL-3000 data scaling
HKL-3000 phasing version: MOLREP