X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1 M SUCCINATE PHOSPHATE GLYCINE BUFFER PH 6, 30% PEG1K, 0.5% DMSO, SITTING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 98.89 α = 90
b = 98.89 β = 90
c = 81.03 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MIRRORS 2005-04-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- SLS X10SA

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
2.05 50 96.7 0.1 -- -- 3.3 -- 27388 -- 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)
2.05 2.15 80.0 0.44 -- 2.0 2.0 --

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 2.05 85.75 -- -- -- 25947 1381 96.7 -- 0.185 0.183 0.221 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 2.05 2.1 -- 63 1444 0.328 0.452 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.77
Anisotropic B[1][1] 0.61
Anisotropic B[1][2] 0.31
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.92
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.364
r_bond_refined_d 0.013
r_angle_refined_deg 1.39
r_angle_other_deg 0.846
r_gen_planes_refined 0.005
r_xyhbond_nbd_refined 0.154
r_symmetry_hbond_refined 0.132
r_chiral_restr 0.074
r_nbtor_other 0.081
r_dihedral_angle_1_deg 5.475
r_nbd_other 0.18
r_dihedral_angle_2_deg 33.78
r_symmetry_vdw_refined 0.053
r_dihedral_angle_3_deg 13.717
r_mcbond_it 0.919
r_nbtor_refined 0.176
r_dihedral_angle_4_deg 14.499
r_bond_other_d 0.001
r_scbond_it 1.626
r_scangle_it 2.615
r_nbd_refined 0.184
r_symmetry_vdw_other 0.314
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2213
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 140

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
DENZO data reduction
SCALEPACK data scaling
PHASER phasing