X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.47
Temperature 277.0
Details 47.0000% polyethylene glycol 200, 0.1M HEPES pH 7.47, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.74 α = 90
b = 72.67 β = 90
c = 76.07 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2010-03-12
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 -- 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
2.2 29.67 98.8 0.059 -- -- -- -- 20101 -- -3.0 42.65
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 2.28 93.1 0.681 -- 1.8 -- --

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 2.2 29.672 -- 0.0 -- 20052 1021 99.51 -- 0.199 0.197 0.237 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 2.202 2.259 -- 61 1318 0.273 0.281 -- 95.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 48.924
Anisotropic B[1][1] 0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.82
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.29
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.002
r_bond_other_d 0.003
r_mcangle_it 1.422
r_scbond_it 2.595
r_dihedral_angle_4_deg 14.312
r_angle_other_deg 1.057
r_bond_refined_d 0.017
r_dihedral_angle_3_deg 15.153
r_dihedral_angle_1_deg 6.255
r_chiral_restr 0.065
r_gen_planes_refined 0.006
r_angle_refined_deg 1.314
r_mcbond_it 0.755
r_mcbond_other 0.2
r_dihedral_angle_2_deg 37.217
r_scangle_it 4.088
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2824
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 63

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0110
PHENIX refinement
SOLVE phasing
MolProbity model building version: 3beta29
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.006
XDS data reduction