X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Y08PDB ENTRY 2Y08

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
172969% PEG 4000, 0.2 M MGCL, 23 DEGREES CELSIUS., pH 7.0
Crystal Properties
Matthews coefficientSolvent content
2.6353.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.088α = 90
b = 106.171β = 94.63
c = 151.172γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 315rMIRRORS2010-11-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.1ALS8.3.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
11.7919.8276.70.0610.62.91613951.518.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.791.8926.90.242.41.9

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 ENTRY 2Y081.79150.68152628813876.450.149690.146030.219RANDOM18.683
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]
0.14-0.170.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.344
r_dihedral_angle_4_deg20.219
r_dihedral_angle_3_deg14.884
r_dihedral_angle_1_deg6.203
r_scangle_it6.057
r_scbond_it4.099
r_mcangle_it2.545
r_rigid_bond_restr2.433
r_angle_refined_deg2.02
r_mcbond_it1.644
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.344
r_dihedral_angle_4_deg20.219
r_dihedral_angle_3_deg14.884
r_dihedral_angle_1_deg6.203
r_scangle_it6.057
r_scbond_it4.099
r_mcangle_it2.545
r_rigid_bond_restr2.433
r_angle_refined_deg2.02
r_mcbond_it1.644
r_chiral_restr0.14
r_bond_refined_d0.024
r_gen_planes_refined0.011
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms14985
Nucleic Acid Atoms
Solvent Atoms2000
Heterogen Atoms380

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing