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 = 130.79 α = 90
b = 66.49 β = 117.54
c = 141.24 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate TWO MIRRORS 2000-05-15
Diffraction Radiation
Monochromator Protocol
FLAT AND N2 COOLED AND SAGITTALY BENT MONOCHROMATORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A -- ESRF BM30A

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
1.95 24 96.6 0.032 -- -- 1.83 -- 151926 -- -- --
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)
1.95 2.0 96.6 0.142 -- 5.0 1.8 --

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
SIR 1.95 24.0 -- -- -- 140398 7402 94.1 -- 0.166 0.165 0.19 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 1.95 2.0 -- 551 10293 0.2 0.237 -- --
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.125
r_scbond_it 2.667
r_chiral_restr 0.112
r_symmetry_vdw_refined 0.153
r_dihedral_angle_3_deg 1.117
r_angle_other_deg 1.799
r_xyhbond_nbd_refined 0.157
r_gen_planes_refined 0.007
r_mcangle_it 1.284
r_nbd_other 0.21
r_xyhbond_nbd_other 0.208
r_bond_refined_d 0.018
r_bond_other_d 0.002
r_nbd_refined 0.227
r_symmetry_vdw_other 0.178
r_scangle_it 4.489
r_gen_planes_other 0.004
r_mcbond_it 0.674
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9520
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 1213

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MLPHARE phasing
DM phasing
REFMAC refinement version: 5.0