X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.15
Details 50 mM sodium citrate, pH 6.0, 1 M sodium chloride, 20% PEG400, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.85 α = 90
b = 85.85 β = 90
c = 177.86 γ = 90
Symmetry
Space Group P 4 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-11-21
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock double crystal sagittal focusing 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
2.97 41.73 97.4 0.108 -- -- 5.8 -- 13919 -- -- --
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)
3.0 3.11 99.1 0.827 -- -- 5.6 1359

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 2.98 41.727 -- 0.0 -- 13894 968 96.8 -- 0.2419 0.24 0.2692 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 2.975 3.052 -- 70 857 0.347 0.443 -- 90.35
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 100.828
Anisotropic B[1][1] 0.9
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.81
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.242
r_mcangle_it 0.833
r_scbond_it 1.282
r_bond_refined_d 0.01
r_dihedral_angle_2_deg 34.086
r_scangle_it 2.272
r_dihedral_angle_3_deg 17.494
r_mcbond_it 0.412
r_dihedral_angle_4_deg 16.488
r_gen_planes_refined 0.004
r_chiral_restr 0.08
r_dihedral_angle_1_deg 6.032
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2526
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 0

Software

Software
Software Name Purpose
SCALEPACK data scaling
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.10
CBASS data collection
DENZO data reduction
MOLREP phasing