X-RAY DIFFRACTION Experimental Data & Validation


Lost? View more X-Ray Crystallographic info.

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 295.0
Details 0.1M sodium caodylate, 0.2M sodium acetate, 18% PEG 8000, 20mM L-arginine, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.92 α = 90
b = 81.92 β = 90
c = 69.59 γ = 120
Symmetry
Space Group P 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ mirrors 2008-08-19
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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
2.2 50 98.1 0.074 -- -- 1.67 48875 26032 3.0 2.0 34.0
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)
2.2 2.24 97.7 0.327 -- 2.24 -- 1302

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 2.2 35.3 -- -- 26032 24713 1319 98.12 -- 0.17896 0.17652 0.2229 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 2.2 2.257 -- 93 1813 0.218 0.281 -- 97.84
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.726
Anisotropic B[1][1] 0.08
Anisotropic B[1][2] 0.04
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.12
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.967
r_scbond_it 1.832
r_mcangle_it 1.118
r_mcbond_it 0.575
r_gen_planes_refined 0.005
r_chiral_restr 0.096
r_dihedral_angle_4_deg 16.449
r_dihedral_angle_3_deg 16.153
r_dihedral_angle_2_deg 28.95
r_dihedral_angle_1_deg 6.542
r_angle_refined_deg 1.325
r_bond_refined_d 0.011
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2435
Luzzati Resolution Cutoff (Low) 27.72
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3588
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 138

Software

Computing
Computing Package Purpose
CrystalClear Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0110 refinement
PHASER model building
CrystalClear data collection