X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UBP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.353% SATURATED AMMONIUM SULPHATE, 1.2 M LICL, 20 MM SODIUM CITRATE PH 6.3. SEE ACTA (1998) D54 409-412
Crystal Properties
Matthews coefficientSolvent content
2.754

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 131.357α = 90
b = 131.357β = 90
c = 189.756γ = 120
Symmetry
Space GroupP 63 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCHBENT MIRROR1996-06-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE BW7BEMBL/DESY, HAMBURGBW7B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.651498.70.0767.616.510.22114679-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.651.6897.80.59592.23.58

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 REPLACEMENTTHROUGHOUT1UBP220836977127596.70.160.160.2RANDOM21.15
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]
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor29.7
p_staggered_tor14.8
p_planar_tor5.6
p_scangle_it4.596
p_scbond_it3.701
p_mcangle_it2.176
p_mcbond_it1.725
p_multtor_nbd0.254
p_singtor_nbd0.181
p_planar_d0.033
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor29.7
p_staggered_tor14.8
p_planar_tor5.6
p_scangle_it4.596
p_scbond_it3.701
p_mcangle_it2.176
p_mcbond_it1.725
p_multtor_nbd0.254
p_singtor_nbd0.181
p_planar_d0.033
p_angle_d0.028
p_bond_d0.013
p_angle_deg
p_hb_or_metal_coord
p_plane_restr
p_chiral_restr
p_xhyhbond_nbd
p_xyhbond_nbd
p_orthonormal_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6055
Nucleic Acid Atoms
Solvent Atoms881
Heterogen Atoms7

Software

Software
Software NamePurpose
AMoREphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling