3FM8

Crystal structure of full length centaurin alpha-1 bound with the FHA domain of KIF13B (CAPRI target)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherunpublished model of human centaurin alpha-1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP62911.2M lithium sulfate, 0.1M Sodium citrate, 0.5M ammonium sulfate, pH 6.0, vapor diffusion, hanging drop, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.6558.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 115.632α = 90
b = 115.632β = 90
c = 189.291γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152008-04-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.97918APS19-ID

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
12.32099.70.087.157550
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)
12.32.3898.30.7395.35574

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 REPLACEMENTTHROUGHOUTunpublished model of human centaurin alpha-12.319.86557396202399.680.2320.2310.272thin shells (sftools)36.33
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]
0.0270.027-0.054
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.332
r_dihedral_angle_4_deg15.438
r_dihedral_angle_3_deg14.237
r_dihedral_angle_1_deg5.861
r_mcangle_it2.482
r_scangle_it2.236
r_angle_other_deg1.579
r_mcbond_it1.483
r_scbond_it1.443
r_angle_refined_deg1.259
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.332
r_dihedral_angle_4_deg15.438
r_dihedral_angle_3_deg14.237
r_dihedral_angle_1_deg5.861
r_mcangle_it2.482
r_scangle_it2.236
r_angle_other_deg1.579
r_mcbond_it1.483
r_scbond_it1.443
r_angle_refined_deg1.259
r_mcbond_other0.289
r_chiral_restr0.07
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7157
Nucleic Acid Atoms
Solvent Atoms134
Heterogen Atoms39

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data scaling