X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 289.0
Details 0.2 M Sodium acetate, 0.1 m Bis-tris-propane, 20% w/v PEG 3350, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.32 α = 90
b = 61.55 β = 90
c = 113.69 γ = 90
Symmetry
Space Group P 2 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2008-07-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.9334 ESRF ID14-1

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
2.1 50 94.6 0.085 -- -- 4.6 17823 17823 -3.0 -3.0 31.238
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)
2.1 2.2 96.6 0.478 -- 4.11 -- 10623

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 2.1 50.0 -- 0.0 17823 17823 913 94.58 -- 0.1602 0.1572 0.2187 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 2.1 2.154 1262 68 1262 0.202 0.295 -- 97.29
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.61
Anisotropic B[1][1] -1.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.46
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.3
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.124
r_dihedral_angle_2_deg 35.414
r_bond_refined_d 0.022
r_dihedral_angle_4_deg 17.531
r_scbond_it 2.603
r_angle_refined_deg 2.282
r_scangle_it 3.538
r_dihedral_angle_1_deg 5.286
r_mcbond_it 1.003
r_dihedral_angle_3_deg 15.266
r_mcangle_it 1.735
r_gen_planes_refined 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1243
Nucleic Acid Atoms 773
Heterogen Atoms 0
Solvent Atoms 296

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing version: 1.3.3
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
MxCuBE data collection
XDS data reduction