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 = 98.24 α = 90
b = 98.24 β = 90
c = 80.89 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 2005-03-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 -- BESSY 14.2

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 97.1 0.04 -- -- 5.1 -- 34129 -- 3.0 --
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)
1.9 2.0 97.0 0.24 -- 3.4 2.9 --

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 1.9 40.0 -- -- -- 31653 1709 95.1 -- 0.218 0.216 0.265 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 -- 114 1799 0.626 0.694 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.54
Anisotropic B[1][1] 0.42
Anisotropic B[1][2] 0.21
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.63
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 15.212
r_chiral_restr 0.07
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_symmetry_vdw_refined 0.272
r_dihedral_angle_2_deg 35.331
r_bond_other_d 0.001
r_nbd_refined 0.196
r_bond_refined_d 0.009
r_nbtor_other 0.081
r_symmetry_vdw_other 0.264
r_nbd_other 0.172
r_scangle_it 5.081
r_mcangle_it 2.132
r_mcbond_it 1.27
r_nbtor_refined 0.178
r_dihedral_angle_1_deg 5.489
r_angle_other_deg 0.77
r_xyhbond_nbd_refined 0.161
r_scbond_it 3.233
r_symmetry_hbond_refined 0.175
r_dihedral_angle_3_deg 13.005
r_angle_refined_deg 1.106
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2214
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 268

Software

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