X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 298.0
Details 17% PEG 6000, 0.1M Bis-Tris, 0.14M Ammonium sulfate, 0.01M L-proline, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.73 α = 90
b = 108.73 β = 90
c = 169.81 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD -- 2010-01-07
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.97862 SSRL BL9-2

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
2.8 29.44 99.9 0.104 -- -- 12.1 29224 29191 0.0 0.0 57.0
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)
2.8 2.95 100.0 0.5 -- 4.7 11.7 4190

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
SAD 2.8 28.8 -- 0.0 29224 29186 1464 99.99 0.18436 0.18436 0.18221 0.22571 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 2.8 2.872 2111 105 2006 0.252 0.281 -- 99.95
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 50.602
Anisotropic B[1][1] 1.98
Anisotropic B[1][2] 0.99
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.98
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.97
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_chiral_restr 0.111
r_dihedral_angle_4_deg 18.42
r_dihedral_angle_3_deg 16.847
r_dihedral_angle_2_deg 39.805
r_dihedral_angle_1_deg 5.373
r_angle_refined_deg 1.517
r_bond_refined_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8439
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 84

Software

Computing
Computing Package Purpose
BLU-ICE Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.6.0050 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0050 refinement
SOLVE model building
BLU-ICE data collection