X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 298.0
Details PEG 4000, 200mM Ammonium Sulfate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.1 α = 90
b = 58.1 β = 90
c = 390.57 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2005-10-31
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.1 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
2.4 50 92.2 0.09 -- -- 8.9 -- 15342 -- -- --
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)
2.4 2.49 71.0 0.526 -- -- 6.1 1115

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
FOURIER SYNTHESIS 2.4 39.81 -- 0.0 -- 15221 772 92.15 -- 0.184 0.181 0.259 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 2.4 2.463 -- 41 767 0.212 0.307 -- 69.72
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.03
Anisotropic B[1][1] 2.83
Anisotropic B[1][2] 1.41
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.83
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.24
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.841
r_scbond_it 2.493
r_mcangle_it 1.533
r_mcbond_it 0.906
r_symmetry_hbond_refined 0.278
r_symmetry_vdw_refined 0.27
r_bond_refined_d 0.017
r_angle_refined_deg 1.861
r_dihedral_angle_1_deg 5.474
r_dihedral_angle_2_deg 39.598
r_dihedral_angle_3_deg 18.407
r_dihedral_angle_4_deg 22.815
r_chiral_restr 0.189
r_gen_planes_refined 0.006
r_nbd_refined 0.236
r_nbtor_refined 0.31
r_xyhbond_nbd_refined 0.235
r_metal_ion_refined 0.032
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2891
Nucleic Acid Atoms 0
Heterogen Atoms 51
Solvent Atoms 233

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
direct refinement Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.005 data extraction
REFMAC5 refinement
HKL data processing