X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1WOOPDB entries 1WOO, 1V5V
experimental modelPDB 1V5VPDB entries 1WOO, 1V5V

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.829825 mM HEPES, 325 mM NaCl, 20% PEG. PEG increased to 30% for cryo, pH 6.8, Microbatch under oil, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.2846.11

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.656α = 90
b = 121.727β = 101.01
c = 59.648γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDvertical focusing mirrors2008-10-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.9APS22-ID

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
12.1501000.0719.28.64381934.2
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)
12.12.181000.201134385

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 1WOO, 1V5V2.143.51438134274410661000.16770.166070.23092RANDOM34.23
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]
1.521.43-1.240.26
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.328
r_dihedral_angle_4_deg19.438
r_dihedral_angle_3_deg16.94
r_dihedral_angle_1_deg7.319
r_scangle_it3.663
r_scbond_it2.413
r_mcangle_it1.72
r_angle_refined_deg1.716
r_mcbond_it1.004
r_angle_other_deg0.999
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.328
r_dihedral_angle_4_deg19.438
r_dihedral_angle_3_deg16.94
r_dihedral_angle_1_deg7.319
r_scangle_it3.663
r_scbond_it2.413
r_mcangle_it1.72
r_angle_refined_deg1.716
r_mcbond_it1.004
r_angle_other_deg0.999
r_mcbond_other0.266
r_chiral_restr0.111
r_bond_refined_d0.021
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5898
Nucleic Acid Atoms
Solvent Atoms559
Heterogen Atoms14

Software

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