X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Temperature 296.4
Details Precipitant:2.0 M ammonium sulfate Protein: 20 mM tris HCl, 0.5 M NaCl, pH 7.9, 10% glycerol Equal volumes mixed, Microbatch under oil, temperature 296.4K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.51 α = 90
b = 66.59 β = 90
c = 117.97 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 MARRESEARCH -- 2005-08-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.00000 APS 22-BM

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
1.8 50 100.0 0.078 -- -- 6.9 -- 48633 -- -- --
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)
1.8 1.86 99.77 0.464 -- -- 6.3 --

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 1.8 46.7 0.0 0.0 48557 46104 2453 99.95 0.171 0.171 0.168 0.21 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 1.8 1.846 3480 175 3305 0.214 0.262 -- 99.77
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.201
Anisotropic B[1][1] 0.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.13
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.89
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.219
r_scbond_it 2.441
r_angle_other_deg 0.729
r_nbtor_refined 0.167
r_mcbond_it 0.823
r_mcbond_other 0.071
r_bond_other_d 0.001
r_symmetry_vdw_other 0.159
r_chiral_restr 0.059
r_dihedral_angle_4_deg 12.756
r_dihedral_angle_3_deg 11.509
r_bond_refined_d 0.006
r_gen_planes_refined 0.003
r_angle_refined_deg 0.989
r_nbtor_other 0.078
r_mcangle_it 1.187
r_dihedral_angle_1_deg 5.572
r_nbd_refined 0.186
r_symmetry_vdw_refined 0.127
r_symmetry_hbond_refined 0.093
r_dihedral_angle_2_deg 35.253
r_nbd_other 0.16
r_xyhbond_nbd_refined 0.098
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3448
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 741

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.2.0005
PDB_EXTRACT data extraction version: 1.701
HKL-2000 data scaling
MOLREP phasing