X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MHOpdb entry 1MHO

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.22890.1 M HEPES, 18-20%PEG400, 0.2 M CaCl2, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties
Matthews coefficientSolvent content
2.0640.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 63.4α = 90
b = 81.6β = 107
c = 71.5γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm plateMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODESIEMENS

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
11.950990.07815.86387122
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)
11.9294.10.3154.97334

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpdb entry 1MHO1.930.323.545487027431000.1770.1740.241RANDOM27.082
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]
0.29-0.07-0.530.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.782
r_dihedral_angle_4_deg22.899
r_dihedral_angle_3_deg15.47
r_dihedral_angle_1_deg5.676
r_scangle_it4.634
r_scbond_it3.192
r_mcangle_it1.73
r_angle_refined_deg1.723
r_mcbond_it1.484
r_nbtor_refined0.311
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.782
r_dihedral_angle_4_deg22.899
r_dihedral_angle_3_deg15.47
r_dihedral_angle_1_deg5.676
r_scangle_it4.634
r_scbond_it3.192
r_mcangle_it1.73
r_angle_refined_deg1.723
r_mcbond_it1.484
r_nbtor_refined0.311
r_symmetry_vdw_refined0.288
r_symmetry_hbond_refined0.251
r_nbd_refined0.23
r_xyhbond_nbd_refined0.216
r_metal_ion_refined0.156
r_chiral_restr0.125
r_bond_refined_d0.019
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5917
Nucleic Acid Atoms
Solvent Atoms617
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata scaling
CNSphasing