X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.2
Temperature 295.0
Details Ethanol, Tris-HCl, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.66 α = 90
b = 47.7 β = 90
c = 56.52 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 ADSC QUANTUM 4 -- 2004-11-10
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9788 NSLS X4A

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 36.5 98.7 0.042 -- -- 5.7 20939 20939 0.0 0.0 20.8
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 0.276 -- 6.1 5.4 2067

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 36.47 0.0 0.0 20939 20939 2132 98.7 0.23794 0.23794 0.23298 0.28277 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 1.538 1505 149 1356 0.265 0.305 -- 97.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 23.684
Anisotropic B[1][1] -0.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.75
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.0
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.671
r_scbond_it 2.584
r_mcangle_it 1.469
r_mcbond_it 0.91
r_nbd_refined 0.215
r_gen_planes_refined 0.005
r_chiral_restr 0.07
r_dihedral_angle_4_deg 17.869
r_dihedral_angle_3_deg 15.373
r_dihedral_angle_2_deg 32.029
r_dihedral_angle_1_deg 3.832
r_angle_refined_deg 1.29
r_bond_refined_d 0.011
r_nbtor_refined 0.296
r_xyhbond_nbd_refined 0.14
r_symmetry_vdw_refined 0.125
r_symmetry_hbond_refined 0.134
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 980
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 117

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement