X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 291.0
Details TRIS 0.02M, 20% PEG 4000, 0.01M NaCl, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.22 α = 90
b = 48.49 β = 107.86
c = 118.07 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2012-06-30
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03

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
2.74 42.15 82.0 0.121 -- -- 1.6 -- 26577 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)
2.74 2.81 85.6 0.909 -- 1.8 1.6 --

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 2.742 42.15 -- -- 26562 25218 1344 97.65 -- 0.21767 0.214 0.28438 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 2.742 2.813 -- 95 1858 0.343 0.428 -- 98.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 64.941
Anisotropic B[1][1] -0.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.78
Anisotropic B[2][2] 0.7
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.7
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.828
r_gen_planes_refined 0.006
r_mcbond_other 1.466
r_scbond_it 1.645
r_angle_refined_deg 1.571
r_gen_planes_other 0.001
r_dihedral_angle_1_deg 8.445
r_dihedral_angle_4_deg 18.238
r_chiral_restr 0.089
r_dihedral_angle_2_deg 38.219
r_bond_refined_d 0.012
r_bond_other_d 0.001
r_dihedral_angle_3_deg 20.491
r_mcangle_it 2.427
r_mcbond_it 1.466
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6649
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 21

Software

Software
Software Name Purpose
Aimless data scaling version: 0.1.16
PHASER phasing
REFMAC refinement version: 5.7.0029
PDB_EXTRACT data extraction version: 3.11
XSCALE data scaling