X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 293.0
Details 0.1 M TRIS hydrochloride pH 8.5, 0.2 M Magnesium chloride hexahydrate, 15% w/v PEG 4,000, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.21 α = 90
b = 86.21 β = 90
c = 109.41 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 -- 2009-04-18
Diffraction Radiation
Monochromator Protocol
Double crystal, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1

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
2.2 67.7 98.2 -- -- -- -- 21579 21411 -- -- --
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)
2.2 2.257 99.62 0.569 -- -- -- --

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 2.2 67.7 -- -- -- 20344 1065 99.22 -- 0.19988 0.19757 0.24348 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 2.2 2.257 -- 76 1481 0.219 0.252 -- 99.62
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.329
Anisotropic B[1][1] -0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.13
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.26
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 15.759
r_scbond_it 2.515
r_angle_refined_deg 1.522
r_symmetry_vdw_refined 0.214
r_mcbond_it 1.04
r_nbtor_refined 0.301
r_dihedral_angle_1_deg 6.385
r_dihedral_angle_4_deg 16.997
r_symmetry_hbond_refined 0.46
r_gen_planes_refined 0.007
r_dihedral_angle_2_deg 39.124
r_scangle_it 3.768
r_bond_refined_d 0.017
r_chiral_restr 0.104
r_xyhbond_nbd_refined 0.18
r_nbd_refined 0.205
r_mcangle_it 1.724
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2342
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 174

Software

Software
Software Name Purpose
HKL-2000 data collection
MOLREP phasing
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
HKL-2000 data scaling