X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MH1 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6277100mM MES pH6.0, 15mM ZnSO4, 10% PEGMME 550., VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.5565.34

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89.727α = 90
b = 89.727β = 90
c = 190.618γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray90CCDMAR CCD 165 mmDouble crystal monochromator. Si(111) or Si(220) options. Sagitall focusing. Cylindrically bent ULE mirror with Pt and Rh coating.2007-01-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X3A1.284NSLSX3A

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
11.977.6299.90.1107.770803
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)
11.91.971000.5123.77.8

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 DIFFRACTIONand molecular replacementTHROUGHOUT1MH11.977.6267009356099.610.177330.175680.20808RANDOM27.003
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]
0.630.310.63-0.94
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.036
r_dihedral_angle_4_deg21.019
r_dihedral_angle_3_deg15.685
r_dihedral_angle_1_deg6.697
r_scangle_it3.447
r_scbond_it2.412
r_angle_refined_deg1.627
r_mcangle_it1.474
r_mcbond_it1.278
r_angle_other_deg0.911
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.036
r_dihedral_angle_4_deg21.019
r_dihedral_angle_3_deg15.685
r_dihedral_angle_1_deg6.697
r_scangle_it3.447
r_scbond_it2.412
r_angle_refined_deg1.627
r_mcangle_it1.474
r_mcbond_it1.278
r_angle_other_deg0.911
r_symmetry_vdw_other0.311
r_symmetry_hbond_refined0.264
r_nbd_refined0.225
r_mcbond_other0.223
r_xyhbond_nbd_refined0.193
r_nbd_other0.192
r_nbtor_refined0.178
r_symmetry_vdw_refined0.147
r_xyhbond_nbd_other0.115
r_chiral_restr0.105
r_nbtor_other0.089
r_symmetry_metal_ion_refined0.089
r_metal_ion_refined0.052
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4141
Nucleic Acid Atoms
Solvent Atoms804
Heterogen Atoms92

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
SOLVEphasing
RESOLVEphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345data collection
HKL-2000data reduction