4J5V

Crystal structure of p19 in complex with double-helical RNA 19mer p(CAG)3C(CCG)3


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP62911.7 mM ammonium sulfate, 0.1 M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.8256.34

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.219α = 90
b = 90.219β = 90
c = 148.039γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2010-10-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-10.9724ESRFID23-1

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
12.153098.20.119.53.112580
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)
12.152.1995.90.1341.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT2.15151188861097.890.173690.171610.21401RANDOM45.401
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]
2.221.112.22-3.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.564
r_dihedral_angle_4_deg16.44
r_dihedral_angle_3_deg13.944
r_dihedral_angle_1_deg5.575
r_scangle_it3.967
r_scbond_it2.808
r_mcangle_it2.127
r_angle_refined_deg2.114
r_mcbond_it1.287
r_symmetry_vdw_other0.373
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.564
r_dihedral_angle_4_deg16.44
r_dihedral_angle_3_deg13.944
r_dihedral_angle_1_deg5.575
r_scangle_it3.967
r_scbond_it2.808
r_mcangle_it2.127
r_angle_refined_deg2.114
r_mcbond_it1.287
r_symmetry_vdw_other0.373
r_symmetry_hbond_refined0.239
r_xyhbond_nbd_refined0.232
r_symmetry_vdw_refined0.215
r_mcbond_other0.21
r_nbd_other0.207
r_nbtor_refined0.199
r_nbd_refined0.19
r_chiral_restr0.144
r_nbtor_other0.087
r_bond_refined_d0.024
r_gen_planes_refined0.01
r_gen_planes_other0.001
r_bond_other_d
r_angle_other_deg
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms990
Nucleic Acid Atoms405
Solvent Atoms143
Heterogen Atoms40

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing