2IJF

Crystal Structure of the Poliovirus RNA-Dependent RNA Polymerase Fidelity Mutant 3Dpol G64S


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1RA6PDB code 1RA6

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72932M sodium acetate, 0.1 M HEPES, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
4.9274.97

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 125.843α = 90
b = 125.843β = 90
c = 113.155γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU2006-02-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.9APS19-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
1330620317
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
133.114.7

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 code 1RA632019216103899.610.213220.211650.24447RANDOM89.24
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]
6.843.426.84-10.26
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg24.803
r_dihedral_angle_4_deg7.99
r_dihedral_angle_3_deg7.888
r_scangle_it6.422
r_scbond_it4.407
r_mcangle_it3.328
r_mcbond_it2.026
r_angle_refined_deg1.545
r_dihedral_angle_1_deg1.435
r_nbtor_refined0.319
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg24.803
r_dihedral_angle_4_deg7.99
r_dihedral_angle_3_deg7.888
r_scangle_it6.422
r_scbond_it4.407
r_mcangle_it3.328
r_mcbond_it2.026
r_angle_refined_deg1.545
r_dihedral_angle_1_deg1.435
r_nbtor_refined0.319
r_symmetry_vdw_refined0.235
r_nbd_refined0.233
r_xyhbond_nbd_refined0.12
r_chiral_restr0.112
r_bond_refined_d0.01
r_gen_planes_refined
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3697
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

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