X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3C8XPDB entries 3C8X, 2E7H
experimental modelPDB 2E7HPDB entries 3C8X, 2E7H

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.5290.93.0% PEG 4000, 0.1M Sodium acetate, 0.1 M Cacodylate pH 5.5, 0.5 M NDSB 256, VAPOR DIFFUSION, HANGING DROP, temperature 290.9K
Crystal Properties
Matthews coefficientSolvent content
3.0860.03

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 59.358α = 90
b = 89.992β = 90
c = 136.476γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDMirrors2008-11-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-B0.97948APS23-ID-B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.54199.70.0722.434.125966-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.52.5998.10.3752.9442510

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entries 3C8X, 2E7H2.540.5924331131198.490.248730.2460.29943RANDOM35.468
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-5.429.4-3.97
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.705
r_dihedral_angle_4_deg19.003
r_dihedral_angle_3_deg17.374
r_dihedral_angle_1_deg6.639
r_mcangle_it1.259
r_angle_refined_deg1.241
r_scangle_it1.126
r_mcbond_it0.725
r_scbond_it0.709
r_chiral_restr0.082
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.705
r_dihedral_angle_4_deg19.003
r_dihedral_angle_3_deg17.374
r_dihedral_angle_1_deg6.639
r_mcangle_it1.259
r_angle_refined_deg1.241
r_scangle_it1.126
r_mcbond_it0.725
r_scbond_it0.709
r_chiral_restr0.082
r_bond_refined_d0.009
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3658
Nucleic Acid Atoms
Solvent Atoms46
Heterogen Atoms18

Software

Software
Software NamePurpose
HKL-2000data collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling