X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2W46PDB ENTRY 2W46

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.920% PEG 3350, 0.4M THIOCYANATE PH 6.9
Crystal Properties
Matthews coefficientSolvent content
240

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 27.85α = 71.79
b = 45.45β = 89.74
c = 48.91γ = 81.28
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I03DiamondI03

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
11.582491.90.1111.73.130820
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)
11.581.6780.80.223.43.1

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 2W461.624.1526229137292.90.1450.1430.193RANDOM11.71
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]
-0.12-1.260.31.25-0.44-0.48
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.221
r_dihedral_angle_4_deg21.806
r_dihedral_angle_3_deg10.538
r_dihedral_angle_1_deg6.522
r_scangle_it3.344
r_scbond_it2.336
r_mcangle_it1.664
r_angle_refined_deg1.371
r_mcbond_it1.087
r_angle_other_deg0.811
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.221
r_dihedral_angle_4_deg21.806
r_dihedral_angle_3_deg10.538
r_dihedral_angle_1_deg6.522
r_scangle_it3.344
r_scbond_it2.336
r_mcangle_it1.664
r_angle_refined_deg1.371
r_mcbond_it1.087
r_angle_other_deg0.811
r_nbd_refined0.219
r_symmetry_vdw_refined0.219
r_nbd_other0.213
r_symmetry_vdw_other0.176
r_nbtor_refined0.172
r_symmetry_hbond_refined0.16
r_xyhbond_nbd_refined0.14
r_nbtor_other0.084
r_chiral_restr0.078
r_bond_refined_d0.012
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_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 Atoms1968
Nucleic Acid Atoms
Solvent Atoms304
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing