5JRC

Crystal structure of NeC3PO in complex with ssRNA.


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29010% (w/v) PEG 8000, 100 mM imidazole/HCl pH 8.0, 200 mM Ca(OAc)2
Crystal Properties
Matthews coefficientSolvent content
2.3447.48

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 165.416α = 90
b = 77.648β = 118.81
c = 87.754γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX-2252015-04-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL17U1.000SSRFBL17U

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
11.93096.816.3471365

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 REPLACEMENTTHROUGHOUT1.929.0771365378497.890.206880.205630.22983RANDOM22.236
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]
1.2-1.464.2-2.87
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.039
r_dihedral_angle_2_deg33.174
r_dihedral_angle_4_deg19.273
r_dihedral_angle_3_deg14.984
r_sphericity_bonded12.153
r_dihedral_angle_1_deg3.854
r_rigid_bond_restr3.144
r_angle_other_deg1.194
r_angle_refined_deg1.161
r_chiral_restr0.066
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.039
r_dihedral_angle_2_deg33.174
r_dihedral_angle_4_deg19.273
r_dihedral_angle_3_deg14.984
r_sphericity_bonded12.153
r_dihedral_angle_1_deg3.854
r_rigid_bond_restr3.144
r_angle_other_deg1.194
r_angle_refined_deg1.161
r_chiral_restr0.066
r_bond_refined_d0.008
r_bond_other_d0.005
r_gen_planes_refined0.005
r_gen_planes_other0.005
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_it
r_mcbond_other
r_mcangle_it
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6190
Nucleic Acid Atoms133
Solvent Atoms218
Heterogen Atoms5

Software

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