X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 289.0
Details MyabA.00778.a.A1 PS00955 at 78 mg/mL Tris pH 7.5 against JCSG+ condition C12 10% PEG 1000 and 10% PEG 8000 with 25% ethylene glycol as cryo-protection reagent, crystal tracking ID 219940c12, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 173.45 α = 90
b = 173.45 β = 90
c = 173.45 γ = 90
Symmetry
Space Group F 2 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-05-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 0.9774 ALS 5.0.1

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
2.28 50 100.0 0.128 -- -- 8.6 -- 19650 -- -- --
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)
2.28 2.35 100.0 0.435 -- 5.2 8.6 1631

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 2.3 50.0 -- 0.0 -- 19309 989 99.95 -- 0.174 0.1726 0.2007 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 2.3 2.36 -- 73 1281 0.197 0.229 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.8503
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.013
r_dihedral_angle_3_deg 14.554
r_dihedral_angle_4_deg 17.873
r_dihedral_angle_2_deg 34.952
r_gen_planes_other 0.002
r_angle_refined_deg 1.533
r_angle_other_deg 1.013
r_chiral_restr 0.087
r_dihedral_angle_1_deg 5.18
r_gen_planes_refined 0.006
r_bond_other_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2210
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 181

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing version: 2.3.0
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
HKL-2000 data reduction
HKL-2000 data scaling