X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 277.0
Details DIHYDRO-NICOTINAMIDE-ADENINE- DINUCLEOTIDE PHOSPHATE (NADPH), 5-[(4-METHYLPHENYL) SULFANYL]-2,4-QUINAZOLINEDIAMINE (GW578), PEG-3350, POTASSIUM 4-MORPHILINEETHANESULFONIC ACID (MES), DITHIOTHREITOL (DTT). A THREE-FOLD EXCESS OF GW578 AND THREE-FOLD EXCESS OF NADPH WAS ADDED TO THE C. ALBICANS DHFR SOLUTION AND LET STAND 277K OVERNIGHT. 17-20 MG/ML C. ALBICANS DHFR IN 50 UM GW578, 50 UM NADPH, 20 MM KMES, 1 MM DTT, PH 6.5 WAS MIXED WITH AN EQUAL PART OF 26 - 34% PEG-3350, THE RESERVOIR SOLUTION. , VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.91 α = 90
b = 67.28 β = 93.07
c = 38.49 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR XENTRONICS MONOCHROMATOR 1989-02-22
Diffraction Radiation
Monochromator Protocol
Huber graphite monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ELLIOTT GX-21 -- -- --

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
1.76 -- 93.5 0.0761 0.0761 -- 3.83 137080 35749 0.0 -3.0 30.7
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)
1.76 1.87 69.6 0.2983 0.2983 1.82 2.17 4426

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
DIRECT REPLACEMENT 1.82 10.0 0.0 2.0 35749 31067 -- 93.5 0.16 0.16 0.16 -- --
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 1.82 1.93 3775 -- -- 0.173 -- -- --
X Ray Diffraction 1.93 2.1 5456 -- -- 0.161 -- -- --
X Ray Diffraction 2.1 2.3 5023 -- -- 0.157 -- -- --
X Ray Diffraction 2.3 2.64 5638 -- -- 0.165 -- -- --
X Ray Diffraction 2.64 3.3 5546 -- -- 0.16 -- -- --
X Ray Diffraction 3.3 10.0 5629 -- -- 0.157 -- -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Konnert, J.H. & Hendrickson, W.A. (1980) Acta Crystallogr. A A36, 344.
RMS Deviations
Key Refinement Restraint Deviation
p_transverse_tor 30.6
p_staggered_tor 14.6
p_planar_tor 3.6
p_xyhbond_nbd 0.133
p_bond_d 0.021
p_angle_d 0.032
p_planar_d 0.038
p_mcbond_it 4.215
p_mcangle_it 4.682
p_scbond_it 5.522
p_scangle_it 6.486
p_plane_restr 0.02
p_chiral_restr 0.247
p_singtor_nbd 0.166
p_multtor_nbd 0.148
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3114
Nucleic Acid Atoms 0
Heterogen Atoms 160
Solvent Atoms 333

Software

Computing
Computing Package Purpose
XENGEN Data Reduction (data scaling)
FRODO Structure Solution
PROFFT Structure Refinement
Software
Software Name Purpose
PROFFT refinement
FRODO model building
XENGEN data reduction