3G2C

Mth0212 in complex with a short ssDNA (CGTA)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7293reservoir: 25% MPD, 100mM KHEPES pH 7.0; complex solution: 50mM KCl, 10mM KH2PO4/K2HPO4 pH 7.0, 1mM MgCl2, vapor diffusion, sitting drop, temperature 293K
Crystal Properties
Matthew coefficientSolvent content
2.3146.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.325α = 90
b = 80.325β = 90
c = 79.611γ = 120
Symmetry
Space GroupP 32

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2007-05-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X110.81500EMBL/DESY, HamburgX11

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.33099.80.08517.15.52552144.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.3899.30.3474.14.5

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 ENTRY 3FZI2.328.2725486129599.70.2070.2040.263RANDOM38.834
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]
-0.9-0.45-0.91.35
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.327
r_dihedral_angle_3_deg19.038
r_dihedral_angle_4_deg18.198
r_dihedral_angle_1_deg7.606
r_scangle_it2.698
r_scbond_it1.69
r_angle_refined_deg1.556
r_mcangle_it1.414
r_mcbond_it0.804
r_nbtor_refined0.314
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.327
r_dihedral_angle_3_deg19.038
r_dihedral_angle_4_deg18.198
r_dihedral_angle_1_deg7.606
r_scangle_it2.698
r_scbond_it1.69
r_angle_refined_deg1.556
r_mcangle_it1.414
r_mcbond_it0.804
r_nbtor_refined0.314
r_symmetry_hbond_refined0.217
r_nbd_refined0.203
r_xyhbond_nbd_refined0.171
r_symmetry_vdw_refined0.156
r_chiral_restr0.114
r_bond_refined_d0.013
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4273
Nucleic Acid Atoms83
Solvent Atoms168
Heterogen Atoms59

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345data collection
HKL-2000data reduction
HKL-2000data scaling