X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.3
Temperature 298.0
Details 25% (w/v) PEG 1500, pH 6.3, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.1 α = 90
b = 66.35 β = 90
c = 75.85 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-04-22
Diffraction Radiation
Monochromator Protocol
SILICON SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
1.08 50 99.6 0.043 -- -- 4.6 55667 55428 0.0 0.0 --
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)
1.08 1.12 99.9 0.388 -- -- 4.5 5506

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 1.08 19.56 -- 0.0 55679 55278 2813 99.28 -- 0.1295 0.1279 0.1592 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 1.08 1.107 -- 203 3817 0.314 0.304 -- 98.43
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.8182
Anisotropic B[1][1] -0.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.65
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.202
r_rigid_bond_restr 7.209
r_gen_planes_refined 0.018
r_chiral_restr 0.145
r_dihedral_angle_3_deg 13.204
r_sphericity_bonded 10.952
r_angle_refined_deg 2.402
r_sphericity_free 28.105
r_gen_planes_other 0.004
r_bond_other_d 0.001
r_dihedral_angle_2_deg 35.027
r_bond_refined_d 0.027
r_dihedral_angle_1_deg 6.71
r_dihedral_angle_4_deg 28.88
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 938
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 254

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
Phaser molecular replacement
SCALEPACK data reduction
REFMAC5 version: 5.7.0029 refinement
pdb_extract version: 3.11 data extraction