X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.3
Details PROTEIN WAS CRYSTALLIZED FROM 1.6 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE BUFFER PH 5.3, 0.2 M POTASSIUM SODIUM TARTRATE, 1 MM DTT, 0.02 % (W/V) SODIUM AZIDE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.61 α = 90
b = 66.61 β = 90
c = 123.33 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE (MAR-345) MARRESERACH TOROIDAL MIRROR 2000-09-15
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X31 1.1,0.9175,0.9169,0.855 EMBL/DESY, HAMBURG X31

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
1.5 16 100.0 0.051 0.051 -- 8.5 -- 45181 -- -- --
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)
1.5 1.72 100.0 0.246 0.246 7.0 8.0 --

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
MAD 1.5 16.0 -- 0.0 45181 -- 2256 100.0 0.1332 0.1325 -- 0.1645 RANDOM
RMS Deviations
Key Refinement Restraint Deviation
s_approx_iso_adps 0.103
s_similar_adp_cmpnt 0.058
s_rigid_bond_adp_cmpnt 0.004
s_anti_bump_dis_restr 0.043
s_non_zero_chiral_vol 0.075
s_zero_chiral_vol 0.075
s_from_restr_planes 0.0281
s_similar_dist 0.0
s_angle_d 0.026
s_bond_d 0.015
Coordinate Error
Parameter Value
Number Disordered Residues 2.0
Occupancy Sum Hydrogen 1059.0
Occupancy Sum Non Hydrogen 1424.5
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1190
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 221

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
SHELXL-97 refinement
MLPHARE model building