X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 292.0
Details ammonium sulfate, Tris-HCl, DTT, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.15 α = 90
b = 53.15 β = 90
c = 189.07 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-01-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2

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
MIRAS 1.5 50.0 -- -- -- 41544 2198 98.23 -- 0.15488 0.15361 0.17796 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 1.54 -- 132 2677 0.22 0.239 -- 91.1
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.559
Anisotropic B[1][1] 1.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.02
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.338
r_nbd_refined 0.223
r_symmetry_hbond_refined 0.143
r_gen_planes_refined 0.007
r_angle_other_deg 2.098
r_sphericity_free 5.513
r_scangle_it 3.82
r_dihedral_angle_1_deg 5.304
r_sphericity_bonded 2.59
r_bond_other_d 0.002
r_nbtor_other 0.095
r_chiral_restr 0.111
r_nbd_other 0.26
r_bond_refined_d 0.018
r_xyhbond_nbd_refined 0.152
r_symmetry_vdw_refined 0.192
r_mcangle_it 1.913
r_rigid_bond_restr 1.486
r_symmetry_vdw_other 0.347
r_angle_refined_deg 1.812
r_gen_planes_other 0.003
r_scbond_it 2.639
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1900
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 366

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
REFMAC 5.1.12 Structure Refinement
Software
Software Name Purpose
SCALEPACK data reduction
DENZO data collection
REFMAC version: 5.1.12 refinement
MLPHARE model building