3GPN

Structure of the non-trimeric form of the E113G PCNA mutant protein


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.82911.6 M ammonium sulfate and 0.1 M sodium Citrate, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthew coefficientSolvent content
3.9768.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 74.59α = 90
b = 147.509β = 90
c = 81.442γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDNOIR-1saggital focusing mirrors2008-02-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 4.2.21.072ALS4.2.2

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
12.581.3898.180.0911.44.75159401486442.619
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)
2.52.56596.790.3650.3653.24.751041

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 REPLACEMENTTHROUGHOUT1PLQ2.581.380.02148641486478498.180.236360.234430.2734RANDOM42.619
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]
-0.04-1.21.24
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.295
r_dihedral_angle_3_deg19.03
r_dihedral_angle_4_deg12.811
r_dihedral_angle_1_deg7.264
r_scangle_it3.513
r_scbond_it2.182
r_mcangle_it1.716
r_angle_refined_deg1.676
r_mcbond_it0.975
r_nbtor_refined0.313
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.295
r_dihedral_angle_3_deg19.03
r_dihedral_angle_4_deg12.811
r_dihedral_angle_1_deg7.264
r_scangle_it3.513
r_scbond_it2.182
r_mcangle_it1.716
r_angle_refined_deg1.676
r_mcbond_it0.975
r_nbtor_refined0.313
r_symmetry_vdw_refined0.257
r_nbd_refined0.217
r_xyhbond_nbd_refined0.145
r_chiral_restr0.101
r_symmetry_hbond_refined0.085
r_bond_refined_d0.016
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1979
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
d*TREKdata reduction
d*TREKdata scaling