X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details THE PROTEIN WAS CRYSTALLIZED USING HANGING-DROP VAPOR DIFFUSION WIHTH 56% AMMONIUM SULFATE, 2% DIOXANE, 100 MM CACODYLATE, PH 6.5. A 1:1 RATIO OF PROTEIN TO WELL SOLUTION WAS USED.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.02 α = 90
b = 89.33 β = 90
c = 96.76 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2001-03-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9B -- NSLS X9B

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
1.8 25 95.5 0.065 -- -- 3.5 -- 68182 -- -- --
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)
1.8 1.86 97.2 0.662 -- 2.33 3.4 --

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 1.8 25.0 -- -- -- 66303 985 95.5 -- -- 0.193 0.227 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 1.8 1.85 -- 77 4917 0.26 0.268 -- --
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.706
r_scbond_it 2.22
r_mcangle_it 1.51
r_mcbond_it 0.805
r_nbd_refined 0.225
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.123
r_dihedral_angle_3_deg 0.759
r_angle_other_deg 1.39
r_bond_other_d 0.001
r_bond_refined_d 0.011
r_nbd_other 0.209
r_xyhbond_nbd_refined 0.239
r_symmetry_vdw_refined 0.251
r_symmetry_vdw_other 0.244
r_symmetry_hbond_refined 0.346
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4912
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 861

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 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