X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 293.0
Details 0.200M NH4OAc, 30.00% PEG-4000, 0.1M Citrate pH 5.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.91 α = 101.86
b = 79.49 β = 95.72
c = 81.7 γ = 92.11
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2008-10-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B -- APS 23-ID-B

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
1.89 37.8 97.1 -- 0.065 -- 2.3 87262 87262 -- -- 25.396
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)
1.89 1.94 95.8 0.438 0.438 1.2 2.0 6386

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 1.89 37.804 -- 0.0 -- 87222 4384 96.98 -- 0.1828 0.1805 0.2252 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 1.89 1.939 -- 325 5912 0.245 0.299 -- 93.86
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.5491
Anisotropic B[1][1] 0.23
Anisotropic B[1][2] 0.42
Anisotropic B[1][3] 0.14
Anisotropic B[2][2] -0.49
Anisotropic B[2][3] 0.53
Anisotropic B[3][3] 0.54
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.007
r_mcbond_other 0.182
r_bond_other_d 0.003
r_angle_other_deg 1.327
r_dihedral_angle_4_deg 14.737
r_angle_refined_deg 1.574
r_gen_planes_other 0.002
r_mcbond_it 0.681
r_dihedral_angle_3_deg 14.591
r_scangle_it 3.121
r_dihedral_angle_2_deg 35.535
r_mcangle_it 1.211
r_bond_refined_d 0.016
r_dihedral_angle_1_deg 6.691
r_scbond_it 1.938
r_chiral_restr 0.091
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9480
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 577

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0110
SCALA data scaling version: 3.3.15
PDB_EXTRACT data extraction version: 3.10
MOSFLM data reduction
MOLREP phasing