X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OT8PDB ENTRY 1OT8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5298ammonium hydrogen phosphate, sodium chloride, imidazole, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.754.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 96.84α = 90
b = 96.84β = 90
c = 108.996γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42005-01-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX14.11.488SRSPX14.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.983.9298.50.0790.07912.43.644926449262.526.9
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.91.9498.60.3850.38512.43.63138

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1OT81.90183.924492642631226198.530.162720.162720.161120.19264RANDOM26.781
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]
0.720.360.72-1.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.899
r_dihedral_angle_4_deg14.885
r_dihedral_angle_3_deg12.908
r_scangle_it5.779
r_dihedral_angle_1_deg5.367
r_scbond_it4.011
r_mcangle_it3.487
r_mcbond_it2.888
r_angle_refined_deg1.425
r_nbtor_refined0.295
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.899
r_dihedral_angle_4_deg14.885
r_dihedral_angle_3_deg12.908
r_scangle_it5.779
r_dihedral_angle_1_deg5.367
r_scbond_it4.011
r_mcangle_it3.487
r_mcbond_it2.888
r_angle_refined_deg1.425
r_nbtor_refined0.295
r_nbd_refined0.207
r_xyhbond_nbd_refined0.197
r_symmetry_hbond_refined0.195
r_symmetry_vdw_refined0.12
r_chiral_restr0.112
r_bond_refined_d0.018
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2944
Nucleic Acid Atoms
Solvent Atoms537
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement