X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2BBHPDB ENTRY 2BBH

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829720% PEG2000, 0.3M Mg(NO3)2, 0.1M Tris, pH8.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties
Matthews coefficientSolvent content
3.8167.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 136.979α = 90
b = 173.181β = 90
c = 134.179γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152005-02-23MSINGLE WAVELENGTH
21100CCDADSC QUANTUM 42005-02-25
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1.0APS17-ID
2SYNCHROTRONAPS BEAMLINE 19-ID1.0APS19-ID

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
13.95095.90.0920.13313.311.42896328963
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)
3.94.0477.20.420.7871.2362304

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 2BBH3.9202732027320142497.390.363010.363010.360770.40649RANDOM162.504
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]
11.02-19.568.54
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.13
r_dihedral_angle_3_deg12.749
r_dihedral_angle_4_deg8.164
r_dihedral_angle_1_deg3.01
r_angle_refined_deg1.172
r_nbtor_refined0.306
r_symmetry_vdw_refined0.224
r_scangle_it0.204
r_nbd_refined0.202
r_mcangle_it0.195
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.13
r_dihedral_angle_3_deg12.749
r_dihedral_angle_4_deg8.164
r_dihedral_angle_1_deg3.01
r_angle_refined_deg1.172
r_nbtor_refined0.306
r_symmetry_vdw_refined0.224
r_scangle_it0.204
r_nbd_refined0.202
r_mcangle_it0.195
r_xyhbond_nbd_refined0.137
r_scbond_it0.122
r_mcbond_it0.108
r_chiral_restr0.074
r_symmetry_hbond_refined0.049
r_bond_refined_d0.007
r_gen_planes_refined0.002
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13810
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

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