5ET2

Lambda-Ru(TAP)2(dppz)]2+ bound to d(TTGGCGCCAA)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72921uL 2mM single stranded DNA, 1uL 4mM rac-RuTAP2dppz, 6ul of a solution containing 40mM Na-cacodylate pH 7, 12mM spermine, 20mM BaCl2, 80mM KCl, 10% 2-methyl-2,4-pentanediol.
Crystal Properties
Matthews coefficientSolvent content
2.9858.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.38α = 90
b = 42.38β = 90
c = 39.3γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2014-10-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.9795DiamondI02

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
11.3923.8399.40.07111.95.97598
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.391.4399.82.26.1

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 DIFFRACTIONSADTHROUGHOUT1.3923.83718238299.080.167080.16610.18519RANDOM20.925
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]
0.340.34-0.68
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free17.624
r_sphericity_bonded10.092
r_long_range_B_refined2.491
r_long_range_B_other2.162
r_angle_refined_deg2.103
r_angle_other_deg1.493
r_scangle_other1.2
r_scbond_it0.821
r_scbond_other0.82
r_rigid_bond_restr0.604
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free17.624
r_sphericity_bonded10.092
r_long_range_B_refined2.491
r_long_range_B_other2.162
r_angle_refined_deg2.103
r_angle_other_deg1.493
r_scangle_other1.2
r_scbond_it0.821
r_scbond_other0.82
r_rigid_bond_restr0.604
r_chiral_restr0.049
r_gen_planes_refined0.01
r_bond_refined_d0.008
r_bond_other_d0.002
r_gen_planes_other0.001
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
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_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms
Nucleic Acid Atoms202
Solvent Atoms65
Heterogen Atoms52

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
XDSdata reduction
SHELXphasing
XSCALEdata scaling