X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Details ENZYME SOLUTION: 10 MG/ML TRPS IN 50 MM BICINE PH 7.8, 1 MM EDTA, 5 MM DITHIOERYTHRITOL, 20 MUM PYRIDOXAL-5'-PHOSPHATE. RESERVOIR SOLUTION: 50 MM BICINE PH 7.8, 5 MM EDTA, 5 MM DITHIOERYTHRITOL, 0.1 MM PYRIDOXAL-5'-PHOSPHATE, 2 MM SPERMINE, 8-12 % PEG 8000. HANGING DROP GEOMETRY, CRYSTALLIZATION DROP CONSISTED AN INITIAL INDOLE PROPANOLE PHOSPHATE (IPL) CONCENTRATION OF 7 MM

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 182.2 α = 90
b = 60.3 β = 94.7
c = 67.4 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH SYNCHROTRON 1998-06-15
Diffraction Radiation
Monochromator Protocol
SYNCHROTRON 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 30.3 93.2 -- 0.057 -- 2.2 -- 133934 -- -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)
1.4 1.5 80.8 -- 0.258 2.36 1.89 --

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 20.0 -- 0.0 -- 133915 6706 95.0 -- -- 0.15 0.177 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.0
RMS Deviations
Key Refinement Restraint Deviation
p_scbond_it 3.798
p_planar_d 0.03
p_chiral_restr 0.103
p_mcangle_it 4.033
p_multtor_nbd 0.29
p_xyhbond_nbd 0.134
p_staggered_tor 12.7
p_angle_d 0.023
p_plane_restr 0.0212
p_xhyhbond_nbd 0.3
p_mcbond_it 3.165
p_scangle_it 4.868
p_planar_tor 3.8
p_bond_d 0.008
p_hb_or_metal_coord 0.024
p_singtor_nbd 0.18
p_special_tor 15.0
p_transverse_tor 30.3
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4952
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 801

Software

Software
Software Name Purpose
REFMAC refinement
XDS data reduction
XSCALE data scaling
CNS phasing