X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 295.0
Details 0.1M Tris, 15% PEG8000, 50mM Ammonium Sulfate, 0.2M Magnesium Chloride, 10mM NADPH, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.3 α = 90
b = 81.46 β = 90
c = 145.02 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 QUANTUM 4 -- 2001-12-08
Diffraction Radiation
Monochromator Protocol
Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.0072 APS 17-ID

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
1.6 20 92.6 0.065 -- -- 6.3 84533 84533 -- -3.0 14.5
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)
1.6 1.64 57.8 0.175 -- 4.1 3.5 3455

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 1.604 10.0 -- 0.0 81579 81579 2508 100.0 0.14634 0.14634 0.14515 0.18589 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 1.604 1.644 -- 108 3650 0.153 0.191 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.775
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 9.422
r_scbond_it 6.497
r_bond_refined_d 0.017
r_angle_refined_deg 1.796
r_dihedral_angle_1_deg 4.508
r_dihedral_angle_2_deg 16.689
r_chiral_restr 0.126
r_gen_planes_refined 0.009
r_nbd_refined 0.218
r_xyhbond_nbd_refined 0.145
r_symmetry_vdw_refined 0.566
r_symmetry_hbond_refined 0.26
r_mcbond_it 3.113
r_mcangle_it 5.286
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.08
Luzzati ESD (R-Free Set) 0.084
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5432
Nucleic Acid Atoms 0
Heterogen Atoms 96
Solvent Atoms 866

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
MLPHARE model building
SCALEPACK data reduction
HKL-2000 data collection