X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 288.0
Details PEG3350, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 288K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.66 α = 90
b = 44.66 β = 90
c = 125.35 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-11-27
Diffraction Radiation
Monochromator Protocol
silica SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.74 EMBL/DESY, HAMBURG BW7A

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 25 99.0 0.041 -- -- 19.9 4813 4813 -3.0 -3.0 --
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 2.68 100.0 0.22 -- 12.0 -- 389

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
S-SAD 2.6 10.0 -- -2.0 4456 4456 210 100.0 0.2124 0.2124 0.20989 0.26659 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 2.708 -- 23 493 0.247 0.278 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.847
Anisotropic B[1][1] 2.81
Anisotropic B[1][2] 1.4
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.81
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.21
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.54
r_bond_refined_d 0.015
r_angle_refined_deg 1.766
r_dihedral_angle_1_deg 6.704
r_chiral_restr 0.129
r_gen_planes_refined 0.006
r_nbd_refined 0.253
r_xyhbond_nbd_refined 0.272
r_symmetry_vdw_refined 0.186
r_symmetry_hbond_refined 0.159
r_mcbond_it 0.621
r_mcangle_it 1.176
r_scbond_it 2.109
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 894
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 24

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement