X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.4
Details PEG 8000, ammonium acetate, glycerol, phosphate buffer, 10 minutes soaking time, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 100K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.68 α = 90
b = 86.45 β = 106.87
c = 80.57 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-06-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X8C 0.9787 NSLS X8C

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
1.5 50 99.9 -- 0.077 -- 3.8 -- 120769 1.0 1.0 --
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)
1.5 1.55 99.9 -- -- -- -- --

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 1.5 28.06 -- 0.0 119480 119480 1221 100.0 -- 0.13664 0.13629 0.17267 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 1.5 1.539 -- 94 8723 0.188 0.243 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.336
Anisotropic B[1][1] 0.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.33
Anisotropic B[2][2] -0.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.04
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.183
r_sphericity_bonded 5.558
r_angle_refined_deg 1.832
r_mcbond_it 1.775
r_symmetry_vdw_refined 0.125
r_dihedral_angle_4_deg 13.834
r_dihedral_angle_1_deg 6.1
r_dihedral_angle_3_deg 11.059
r_rigid_bond_restr 1.7
r_symmetry_hbond_refined 0.201
r_dihedral_angle_2_deg 33.33
r_scbond_it 3.186
r_gen_planes_refined 0.011
r_scangle_it 4.291
r_sphericity_free 6.262
r_chiral_restr 0.126
r_nbd_refined 0.211
r_mcangle_it 2.47
r_bond_refined_d 0.021
r_metal_ion_refined 0.216
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5600
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 1061

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.08
HKL-2000 data reduction
SCALEPACK data scaling