X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5310cacodylate, MPD, magnesium acetate, NaCl, EDTA, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 310K
Crystal Properties
Matthews coefficientSolvent content
2.8356

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.6α = 90
b = 76.8β = 111.7
c = 61.4γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100AREA DETECTORMARRESEARCHOsmic2004-12-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU2001.54

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
1345.899.80.05722.14.780007978-383
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)
133.1199.80.6582.25.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1EC6 (with oligonucleotide removed)3208000757636899.80.242690.240120.240120.29285RANDOM77.058
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
r_dihedral_angle_2_deg44.972
r_dihedral_angle_3_deg21.859
r_dihedral_angle_4_deg17.706
r_dihedral_angle_1_deg5.576
r_angle_refined_deg1.317
r_scangle_it0.676
r_scbond_it0.449
r_nbtor_refined0.304
r_mcangle_it0.29
r_nbd_refined0.241
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg44.972
r_dihedral_angle_3_deg21.859
r_dihedral_angle_4_deg17.706
r_dihedral_angle_1_deg5.576
r_angle_refined_deg1.317
r_scangle_it0.676
r_scbond_it0.449
r_nbtor_refined0.304
r_mcangle_it0.29
r_nbd_refined0.241
r_symmetry_vdw_refined0.234
r_xyhbond_nbd_refined0.163
r_mcbond_it0.161
r_symmetry_hbond_refined0.093
r_chiral_restr0.077
r_bond_refined_d0.01
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2218
Nucleic Acid Atoms308
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing