X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1KGSPDB entry 1KGS C-terminal domain

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION5.62981.4 M Na/K phosphate, pH 5.6, 100 mM glycine, VAPOR DIFFUSION, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3848.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 103.884α = 90
b = 101.129β = 126.72
c = 86.93γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102006-10-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X6A0.9795NSLSX6A

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
11.7792094.80.03618.62.965220
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)
11.7791.8496.70.5822.032.76629

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 1KGS C-terminal domain1.7792065210331094.630.1980.1960.238RANDOM41.509
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]
0.350.43-0.480.64
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.006
r_dihedral_angle_4_deg19.734
r_dihedral_angle_3_deg15.73
r_dihedral_angle_1_deg5.719
r_scangle_it4.449
r_mcangle_it3.729
r_scbond_it3.185
r_mcbond_it2.594
r_angle_refined_deg1.554
r_metal_ion_refined0.378
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.006
r_dihedral_angle_4_deg19.734
r_dihedral_angle_3_deg15.73
r_dihedral_angle_1_deg5.719
r_scangle_it4.449
r_mcangle_it3.729
r_scbond_it3.185
r_mcbond_it2.594
r_angle_refined_deg1.554
r_metal_ion_refined0.378
r_nbtor_refined0.316
r_symmetry_vdw_refined0.266
r_nbd_refined0.236
r_symmetry_hbond_refined0.186
r_xyhbond_nbd_refined0.13
r_chiral_restr0.117
r_symmetry_metal_ion_refined0.115
r_bond_refined_d0.016
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4796
Nucleic Acid Atoms
Solvent Atoms489
Heterogen Atoms46

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing