X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch Method
pH 5.2
Details LYOPHILIZED D121N RNASE A WAS DISSOLVED IN UNBUFFERED WATER TO A CONCENTRATION OF 60MG/ ML. CRYSTALLIZATION WAS PERFORMED IN SMALL SILICONIZED TUBES USING THE BATCH METHOD. A SOLUTION (25UL) OF THE ENZYME WAS MIXED WITH AN EQUAL VOLUME OF 95% (V/V) 2-METHYL-2,4-PENTANEDIOL IN 0.10 M MES BUFFER, PH 5.2. CRYSTALS APPEARED WITHIN SEVERAL MONTHS., batch method

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 30.52 α = 90
b = 38.4 β = 105.7
c = 53.31 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR SIEMENS LONG MIRRORS 1995-08-28
Diffraction Radiation
Monochromator Protocol
NI FILTER --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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 30 88.0 -- 0.019 -- 1.8 -- 15756 -- 0.33 --
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 1.7 75.0 -- 0.057 -- -- --

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 1.6 30.0 -- 0.0 15756 15756 -- 88.0 0.177 -- -- -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model TNT BCORREL
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.011
t_angle_deg 2.15
t_incorr_chiral_ct 0.0
t_gen_planes 0.009
t_trig_c_planes 0.005
t_dihedral_angle_d 17.1
t_it 1.0
t_nbd 0.026
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 956
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 100

Software

Software
Software Name Purpose
XDS data scaling
XCALIBRE data reduction
AMoRE phasing
TNT refinement version: 5E
XDS data reduction
XCALIBRE data scaling