X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details AMMONIUM SULPHATE 2M, MES 0.1M, DIOXANE 2-3%, pH 6.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 139.53 α = 90
b = 139.53 β = 90
c = 208.1 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC TOROIDAL MIRROR 1999-10-15
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.9 50 94.4 0.061 -- -- 6.3 -- 57814 -- -- --
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)
1.9 1.97 96.6 0.233 -- 2.1 4.5 --

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 1.9 30.0 -- -- -- 54884 2921 94.4 -- -- 0.181 0.208 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 1.9 1.95 -- 234 4083 0.19 0.231 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.01
Anisotropic B[1][1] 0.49
Anisotropic B[1][2] 0.25
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.74
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.768
r_scbond_it 2.236
r_mcangle_it 1.489
r_mcbond_it 0.76
r_nbd_refined 0.212
r_gen_planes_other 0.003
r_gen_planes_refined 0.005
r_chiral_restr 0.101
r_dihedral_angle_3_deg 18.034
r_dihedral_angle_1_deg 5.813
r_angle_other_deg 1.043
r_angle_refined_deg 1.433
r_bond_other_d 0.001
r_bond_refined_d 0.012
r_nbd_other 0.201
r_xyhbond_nbd_refined 0.123
r_xyhbond_nbd_other 0.01
r_symmetry_vdw_refined 0.181
r_symmetry_vdw_other 0.201
r_symmetry_hbond_refined 0.077
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5088
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 378

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.0.36 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0.36 refinement
AMORE model building