4QTC

Structure of human haspin (GSG2) in complex with SCH772984 revealing the first type-I binding mode


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3DLZpdb entry 3DLZ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6277.1551% MPD and 0.1 M SPG pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277.15K
Crystal Properties
Matthews coefficientSolvent content
3.0659.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.89α = 90
b = 78.36β = 90
c = 81.75γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6MKirkpatrick Baez bimorph mirror pair2013-10-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.97949DiamondI02

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
11.436.241000.04417.96.1990029892317.4
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)
11.41.481000.6932.46.314277

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (All)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 3DLZ1.436.1929892393986493699.980.149910.149150.1642RANDOM26.339
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]
0.07-0.190.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.798
r_dihedral_angle_4_deg21.87
r_dihedral_angle_3_deg12.316
r_long_range_B_other7.723
r_long_range_B_refined7.719
r_dihedral_angle_1_deg6.559
r_scangle_other3.777
r_scbond_it2.439
r_scbond_other2.439
r_mcangle_other2.319
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.798
r_dihedral_angle_4_deg21.87
r_dihedral_angle_3_deg12.316
r_long_range_B_other7.723
r_long_range_B_refined7.719
r_dihedral_angle_1_deg6.559
r_scangle_other3.777
r_scbond_it2.439
r_scbond_other2.439
r_mcangle_other2.319
r_mcangle_it2.316
r_angle_refined_deg1.61
r_mcbond_it1.473
r_mcbond_other1.46
r_angle_other_deg0.772
r_chiral_restr0.099
r_bond_refined_d0.016
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2637
Nucleic Acid Atoms
Solvent Atoms500
Heterogen Atoms64

Software

Software
Software NamePurpose
GDAdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling