3EMB

Wesselsbron virus Methyltransferase in complex with AdoMet and 7MeGpppG


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ELUPDB ENTRY 3ELU

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP729310mM AdoMet, 1mM 7MeGpppG, 18% PEG 4000, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.1442.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 37.236α = 90
b = 61.297β = 90
c = 128.012γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4mirrors2007-07-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-20.933ESRFID14-2

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
12.364.021000.13711.45.81438013695
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)
2.32.421000.53935.12035

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 REPLACEMENTTHROUGHOUTPDB ENTRY 3ELU2.335.03136141296667799.980.169210.169210.166160.22884RANDOM19.356
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]
-0.2-0.050.26
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.139
r_dihedral_angle_4_deg16.691
r_dihedral_angle_3_deg16.037
r_scangle_it7.774
r_dihedral_angle_1_deg5.762
r_scbond_it4.942
r_mcangle_it3.029
r_mcbond_it1.781
r_angle_refined_deg1.549
r_nbtor_refined0.295
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.139
r_dihedral_angle_4_deg16.691
r_dihedral_angle_3_deg16.037
r_scangle_it7.774
r_dihedral_angle_1_deg5.762
r_scbond_it4.942
r_mcangle_it3.029
r_mcbond_it1.781
r_angle_refined_deg1.549
r_nbtor_refined0.295
r_symmetry_hbond_refined0.203
r_nbd_refined0.187
r_symmetry_vdw_refined0.144
r_chiral_restr0.124
r_xyhbond_nbd_refined0.12
r_bond_refined_d0.01
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2088
Nucleic Acid Atoms
Solvent Atoms190
Heterogen Atoms89

Software

Software
Software NamePurpose
MOSFLMdata reduction
MOLREPphasing
REFMACrefinement
SCALAdata scaling