3GO3

Interactions of an echinomycin-DNA complex with manganese(II) ions


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1624% V/V PEG 200, 6% W/V PEG 3350, 16MM MANGANESE(II) CHLORIDE, 20MM SPERMINE TETRACHLORIDE, 0.1M MES BUFFER (PH 6.0), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
Crystal Properties
Matthews coefficientSolvent content
2.9458.19

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 26.544α = 90
b = 26.544β = 90
c = 162.129γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2008-05-23MSINGLE WAVELENGTH
21x-ray100IMAGE PLATEMAR scanner 345 mm plate2004-12-23MSINGLE WAVELENGTH
31x-ray100CCDBRUKER SMART 60002005-12-21MSAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SASLSX10SA
2ROTATING ANODEMACSCIENCE
3ROTATING ANODEMACSCIENCE

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
11.13092.20.032824.065.2231401
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)
11.11.276.50.20194.442.17

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADFREE R1.120422400117794.30.1630.1620.196RANDOM
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]
RMS Deviations
KeyRefinement Restraint Deviation
s_from_restr_planes0.229
s_zero_chiral_vol0.083
s_approx_iso_adps0.077
s_similar_adp_cmpnt0.065
s_non_zero_chiral_vol0.055
s_rigid_bond_adp_cmpnt0.05
s_anti_bump_dis_restr0.041
s_angle_d0.033
s_bond_d0.017
s_similar_dist
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms134
Nucleic Acid Atoms322
Solvent Atoms45
Heterogen Atoms57

Software

Software
Software NamePurpose
SHELXDphasing
SHELXL-97refinement
XDSdata reduction
SAINTdata reduction
SADABSdata scaling