X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.8
Temperature 291.0
Details 2.0M Ammonium sulfate, 100mM MES, 2mM DTT, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.07 α = 90
b = 131.76 β = 90
c = 74.9 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2002-08-20
Diffraction Radiation
Monochromator Protocol
Si (III) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.000 APS 17-ID

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
2.25 43 95.1 0.0568 0.0456 -- 2.8 39636 39636 0.0 0.0 37.6
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)
2.25 2.35 96.8 0.267 0.253 4.04 2.1 4865

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
MIR 2.25 43.0 0.0 0.0 39635 37624 2011 95.17 0.19163 0.19163 0.18867 0.24703 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 2.25 2.31 -- -- 2804 0.22 0.321 133.0 --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic per atom
Mean Isotropic B 44.682
Anisotropic B[1][1] 2.26
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.61
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.631
r_symmetry_hbond_refined 0.328
r_xyhbond_nbd_refined 0.237
r_mcbond_it 5.239
r_chiral_restr 0.218
r_nbd_refined 0.261
r_scangle_it 15.675
r_symmetry_vdw_refined 0.479
r_scbond_it 10.723
r_mcangle_it 7.31
r_gen_planes_refined 0.012
r_bond_refined_d 0.013
r_angle_refined_deg 2.446
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.194
Luzzati ESD (R-Free Set) 0.191
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3847
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 283

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
HKL-2000 data reduction
SCALEPACK data scaling
MLPHARE phasing
SHELXL refinement