X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MH1PDB ENTRY 1MH1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.550 MM BISTRIS PH 6.5, 10 MM MGCL2, 5 MM DTT, 200 MM KCL, 10% (W/V) PEG 2000, 10% (W/V) PEG 3350
Crystal Properties
Matthews coefficientSolvent content
1.937

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.76α = 90
b = 30.2β = 100.06
c = 139.36γ = 90
Symmetry
Space GroupP 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2005-11-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
11.7838.181000.0812.34.16162816.88
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)
11.781.881000.443.24.1

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 1MH11.7837.85852131061000.1890.1870.227RANDOM19.73
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]
-0.45-0.29-0.420.77
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.157
r_dihedral_angle_4_deg17.1
r_dihedral_angle_3_deg14.723
r_dihedral_angle_1_deg6.276
r_scangle_it3.825
r_scbond_it2.543
r_mcangle_it1.789
r_angle_refined_deg1.633
r_mcbond_it1.16
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.157
r_dihedral_angle_4_deg17.1
r_dihedral_angle_3_deg14.723
r_dihedral_angle_1_deg6.276
r_scangle_it3.825
r_scbond_it2.543
r_mcangle_it1.789
r_angle_refined_deg1.633
r_mcbond_it1.16
r_nbtor_refined0.306
r_symmetry_vdw_refined0.252
r_symmetry_hbond_refined0.217
r_nbd_refined0.214
r_xyhbond_nbd_refined0.16
r_chiral_restr0.119
r_bond_refined_d0.017
r_gen_planes_refined0.007
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5375
Nucleic Acid Atoms
Solvent Atoms296
Heterogen Atoms116

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing