3EVZ

Crystal structure of Methyltransferase from Pyrococcus furiosus


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.5291D9. 0.1 M Tris pH 8.5, 25% w/v PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
238.57

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 46.877α = 90
b = 46.877β = 90
c = 331.412γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 210mirrors2008-10-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X29ANSLSX29A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.255.2292.30.1110.11429.128.41126110605
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.26850.3310.3428.627.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT2.255.22112611060553592.380.201950.199160.259RANDOM33.206
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]
1.020.511.02-1.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.744
r_dihedral_angle_3_deg21.407
r_dihedral_angle_4_deg20.797
r_dihedral_angle_1_deg7.263
r_scangle_it5.154
r_scbond_it3.373
r_angle_refined_deg2.102
r_mcangle_it1.911
r_mcbond_it1.306
r_nbtor_refined0.32
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.744
r_dihedral_angle_3_deg21.407
r_dihedral_angle_4_deg20.797
r_dihedral_angle_1_deg7.263
r_scangle_it5.154
r_scbond_it3.373
r_angle_refined_deg2.102
r_mcangle_it1.911
r_mcbond_it1.306
r_nbtor_refined0.32
r_nbd_refined0.251
r_symmetry_vdw_refined0.218
r_symmetry_hbond_refined0.19
r_xyhbond_nbd_refined0.182
r_chiral_restr0.181
r_bond_refined_d0.024
r_gen_planes_refined0.009
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1575
Nucleic Acid Atoms
Solvent Atoms51
Heterogen Atoms

Software

Software
Software NamePurpose
CBASSdata collection
SHELXSphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling