X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Free Interface Diffusion in Apcf Reactor
pH 6.5
Temperature 293.0
Details Na-tartrate (0.52M), Na-ADA (0.1M), agarose gel (0.15% m/v), pH 6.5, Free interface diffusion in APCF reactor, temperature 293K
Method Dialysis in Apcf Reactor
pH 6.5
Temperature 293.0
Details Na-tartrate (0.52M), Na-ADA (0.1M), agarose gel (0.15% m/v), pH 6.5, Dialysis in APCF reactor, temperature 293K
Method Dialysis in Apcf Reactor
pH 6.5
Temperature 293.0
Details Na-tartrate (0.52M), Na-ADA (0.1M), agarose gel (0.15% m/v), pH 6.5, Dialysis in APCF reactor, temperature 293K
Method Dialysis in Apcf Reactor
pH 6.5
Temperature 293.0
Details Na-tartrate (0.52M), Na-ADA (0.1M), agarose gel (0.15% m/v). THE CRYSTALS WERE GROWN IN THE ADVANCED PROTEIN CRYSTALLIZATION FACILITY (APCF) ABOARD THE US SPACE SHUTTLE (MISSION STS-95) USING EITHER A DIALYSIS SETUP (3 CRYSTALS) OR A FREE-INTERFACE DIFFUSION SETUP (1 CRYSTAL)., pH 6.5, Dialysis in APCF reactor, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.53 α = 90
b = 58.53 β = 90
c = 151.35 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
2 293
3 293
4 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1998-12-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8337 EMBL/DESY, HAMBURG BW7B

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
1.2 20 99.0 0.036 0.036 -- 7.2 -- 82240 0.0 0.0 14.3
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)
1.2 1.23 97.8 0.522 0.522 2.05 4.6 5690

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 1.2 20.0 0.0 0.0 82240 82240 4123 99.0 -- -- 0.127 0.145 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 1.2 1.23 5690 -- -- 0.127 0.145 -- 97.8
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.5
RMS Deviations
Key Refinement Restraint Deviation
s_approx_iso_adps 0.112
s_similar_adp_cmpnt 0.062
s_rigid_bond_adp_cmpnt 0.005
s_anti_bump_dis_restr 0.113
s_similar_dist 0.018
s_zero_chiral_vol 0.08
s_non_zero_chiral_vol 0.091
s_from_restr_planes 0.03
s_angle_d 0.033
s_bond_d 0.016
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.14
Luzzati Sigma A (Observed) 0.14
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.15
Luzzati Sigma A (R-Free Set) 0.14
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1550
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 188

Software

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