X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 303.0
Details 20% PEG 3350, 0.6 M CaCl2, 50 mM HEPES , pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 303K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.54 α = 90
b = 93.1 β = 107.95
c = 87 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 173
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-06-18
Diffraction Radiation
Monochromator Protocol
Side scattering I-beam bent single crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.000 SSRL BL7-1

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 50 -- -- -- -- -- -- 73215 -- -- --
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)
2.0 2.03 98.5 -- -- -- -- --

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 2.0 46.43 -- -- -- 69440 3678 98.48 -- 0.20498 0.20379 0.22725 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 2.001 2.053 -- 276 5060 0.246 0.26 -- 97.75
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.541
Anisotropic B[1][1] -1.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.03
Anisotropic B[2][2] 0.96
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.6
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.862
r_scbond_it 1.134
r_mcangle_it 0.669
r_mcbond_it 0.344
r_gen_planes_refined 0.004
r_chiral_restr 0.07
r_dihedral_angle_4_deg 15.802
r_dihedral_angle_3_deg 14.044
r_dihedral_angle_2_deg 37.588
r_dihedral_angle_1_deg 5.461
r_angle_refined_deg 1.065
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7610
Nucleic Acid Atoms 0
Heterogen Atoms 114
Solvent Atoms 204

Software

Computing
Computing Package Purpose
BLUE ICE Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
PHASER model building
BLUE version: ICE data collection