X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2VRUPDB ENTRY 2VRU

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.52.0M AMMONIUM SULPHATE, 0.1M BIS-TRIS PH 6.5
Crystal Properties
Matthews coefficientSolvent content
1.934.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.46α = 90
b = 68.004β = 101.05
c = 57.407γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2005-07-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-3ESRFID14-3

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
11.63099.20.0419.93.153926216.06
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)
11.61.6697.90.1919.12.6

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 2VRU1.5956.3450735272598.80.1620.160.195RANDOM23.31
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]
-0.570.011.47-0.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.328
r_dihedral_angle_4_deg21.138
r_dihedral_angle_3_deg14.311
r_dihedral_angle_1_deg5.893
r_scangle_it3.755
r_scbond_it2.547
r_mcangle_it1.943
r_angle_refined_deg1.636
r_mcbond_it1.222
r_nbtor_refined0.317
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.328
r_dihedral_angle_4_deg21.138
r_dihedral_angle_3_deg14.311
r_dihedral_angle_1_deg5.893
r_scangle_it3.755
r_scbond_it2.547
r_mcangle_it1.943
r_angle_refined_deg1.636
r_mcbond_it1.222
r_nbtor_refined0.317
r_symmetry_vdw_refined0.307
r_nbd_refined0.247
r_symmetry_hbond_refined0.186
r_xyhbond_nbd_refined0.181
r_chiral_restr0.109
r_bond_refined_d0.016
r_gen_planes_refined0.009
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 Atoms3050
Nucleic Acid Atoms
Solvent Atoms551
Heterogen Atoms68

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing