X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 277.0
Details 15mg/ml enzyme, 2mM NAD+, 50mM sodium phosphate, and 11.5-13% PEG 8000, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.32 α = 79.58
b = 52.83 β = 89.43
c = 90.35 γ = 68.6
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC -- 1999-04-01
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.54059 -- --

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
1.65 30 89.4 0.037 -- -- 2.65 80562 80562 0.0 0.0 16.4
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)
1.65 1.71 69.4 0.151 -- 7.6 -- 6250

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 1.65 30.0 0.0 0.0 80562 80562 4068 89.4 0.165 0.165 0.164 0.185 random
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model overall
Mean Isotropic B 16.4
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 25.2
c_angle_deg 1.74
c_bond_d 0.01
c_improper_angle_d 1.43
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.16
Luzzati Sigma A (Observed) 0.05
Luzzati ESD (R-Free Set) 0.18
Luzzati Sigma A (R-Free Set) 0.09
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5562
Nucleic Acid Atoms 0
Heterogen Atoms 117
Solvent Atoms 1052

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
TRUNCATE data reduction
AMoRE phasing
CNS refinement
CCP4 data scaling version: (TRUNCATE)