X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 2.0M AMMONIUM ACETATE, 10%(V/V) DIOXANE, 0.1M MES/NA, PH6.5, pH 6.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.77 α = 90
b = 56.77 β = 90
c = 58.42 γ = 120
Symmetry
Space Group P 62 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE -- MIRRORS 1999-04-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 -- EMBL/DESY, HAMBURG X11

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
1.4 50 99.7 0.037 -- -- 10.3 -- 11440 -- -- --
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)
1.4 1.45 99.6 0.56 -- 1.9 5.5 --

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 1.4 49.39 -- -- -- 10979 461 99.7 -- 0.198 0.197 0.216 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 1.4 1.44 -- 44 769 0.199 0.248 -- --
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 7.867
r_scbond_it 5.128
r_mcangle_it 3.323
r_mcbond_it 2.254
r_nbd_refined 0.344
r_gen_planes_other 0.004
r_gen_planes_refined 0.009
r_chiral_restr 0.116
r_dihedral_angle_3_deg 0.856
r_angle_other_deg 2.034
r_bond_other_d 0.001
r_bond_refined_d 0.02
r_nbd_other 0.222
r_xyhbond_nbd_refined 0.286
r_xyhbond_nbd_other 0.55
r_symmetry_vdw_refined 0.423
r_symmetry_vdw_other 0.419
r_symmetry_hbond_refined 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 328
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 35

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CCP4 Structure Solution
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
CCP4 model building