X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 0.2 M AMMONIUM ACTETATE, 0.1 M BIS-TRIS PH 6.5, 22% WT/VOL PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 143.61 α = 90
b = 143.61 β = 90
c = 50.03 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 315R) ADSC MIRRORS 2012-02-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 -- DIAMOND I04

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
1.1 46.41 99.2 0.07 -- -- 6.2 -- 154906 -- 2.0 --
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)
1.1 1.16 94.2 0.28 -- 5.4 4.9 --

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 1.1 41.49 -- -- -- 147134 7772 99.14 -- 0.08932 0.08848 0.10524 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 1.1 1.129 -- 480 9814 0.146 0.169 -- 88.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 8.403
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.01
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 7.281
r_sphericity_free 38.456
r_rigid_bond_restr 1.614
r_nbd_refined 0.273
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.093
r_dihedral_angle_4_deg 16.49
r_dihedral_angle_3_deg 11.615
r_dihedral_angle_2_deg 33.889
r_dihedral_angle_1_deg 6.123
r_angle_other_deg 0.818
r_angle_refined_deg 1.392
r_bond_other_d 0.001
r_bond_refined_d 0.01
r_nbd_other 0.175
r_nbtor_refined 0.193
r_nbtor_other 0.086
r_xyhbond_nbd_refined 0.106
r_xyhbond_nbd_other 0.1
r_metal_ion_refined 0.07
r_symmetry_vdw_refined 0.306
r_symmetry_vdw_other 0.266
r_symmetry_hbond_refined 0.158
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3451
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 827

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.7.0025 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0025 refinement
MOLREP model building