X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3HMEPDB entry 3HME

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52770.1 M MES, pH 6.5, 15% w/v PEG550 MME
Crystal Properties
Matthews coefficientSolvent content
2.0439.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 24.84α = 89.88
b = 34.73β = 89.81
c = 129.08γ = 69.45
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2012-12-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-G0.97856APS21-ID-G

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
11.685096.60.089133.73829736333
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)
11.681.7499.90.6173.12412

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 3HME1.7932.2734482185194.870.22710.22520.2612RANDOM29.101
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]
-1.52-0.840.28.16-2.82-6.64
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.941
r_dihedral_angle_4_deg24.631
r_dihedral_angle_3_deg20.322
r_dihedral_angle_1_deg7.772
r_mcangle_it3.973
r_scbond_it3.56
r_mcbond_it3.122
r_angle_refined_deg2.846
r_chiral_restr0.21
r_bond_refined_d0.028
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.941
r_dihedral_angle_4_deg24.631
r_dihedral_angle_3_deg20.322
r_dihedral_angle_1_deg7.772
r_mcangle_it3.973
r_scbond_it3.56
r_mcbond_it3.122
r_angle_refined_deg2.846
r_chiral_restr0.21
r_bond_refined_d0.028
r_gen_planes_refined0.017
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3372
Nucleic Acid Atoms
Solvent Atoms95
Heterogen Atoms

Software

Software
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction