X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2B5IPDB structure 2B5I

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.1295.5MPEG 550, sodium acetate, sodium citrate, phenol, pH 5.1, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Crystal Properties
Matthews coefficientSolvent content
2.6954.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.266α = 83.85
b = 70.545β = 82.45
c = 129.236γ = 89.72
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152004-04-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.11.0781ALS8.2.1

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
13129.194.40.087.81.93945937249
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)
133.1175.30.51.71.63924

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 structure 2B5I3129.13786335379186493.440.222540.222540.220470.26288RANDOM91.905
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]
-0.2-1.12-0.810.29-0.370.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.888
r_dihedral_angle_3_deg18.496
r_dihedral_angle_4_deg13.513
r_dihedral_angle_1_deg6.446
r_scangle_it1.659
r_angle_refined_deg1.269
r_scbond_it0.93
r_mcangle_it0.622
r_mcbond_it0.34
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.888
r_dihedral_angle_3_deg18.496
r_dihedral_angle_4_deg13.513
r_dihedral_angle_1_deg6.446
r_scangle_it1.659
r_angle_refined_deg1.269
r_scbond_it0.93
r_mcangle_it0.622
r_mcbond_it0.34
r_nbtor_refined0.312
r_symmetry_vdw_refined0.238
r_nbd_refined0.217
r_xyhbond_nbd_refined0.142
r_symmetry_hbond_refined0.108
r_chiral_restr0.083
r_bond_refined_d0.009
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms10837
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms350

Software

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