3OV4

Crystal Structure of Ketosteroid Isomerase P39GV40GS42G from Pseudomonas Testosteroni (tKSI) bound to Equilenin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 8CHO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.229810mg/ml protein, 1.8 M ammonium sulfate, 40mM potassium phosphate , 1 mM EDTA, 2mM DTT, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.8456.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.36α = 90
b = 64.36β = 90
c = 505.583γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCD2010-03-24SINGLE WAVELENGTH
21x-ray100CCDADSC QUANTUM 315r2010-04-07SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-20.9795SSRLBL9-2
2SYNCHROTRONSSRL BEAMLINE BL9-10.9795SSRLBL9-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
1,21.82537.4598.70.0725.813.15675256752
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)
1,21.831.8787.20.3830.38322.33579

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT8CHO1.8337.455654956549287398.640.18940.18940.18740.2276RANDOM18.6023
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]
0.380.190.38-0.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.285
r_dihedral_angle_4_deg18.646
r_dihedral_angle_3_deg15.621
r_dihedral_angle_1_deg6.284
r_scangle_it4.601
r_scbond_it2.999
r_mcangle_it2.098
r_angle_refined_deg1.857
r_angle_other_deg1.397
r_mcbond_it1.224
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.285
r_dihedral_angle_4_deg18.646
r_dihedral_angle_3_deg15.621
r_dihedral_angle_1_deg6.284
r_scangle_it4.601
r_scbond_it2.999
r_mcangle_it2.098
r_angle_refined_deg1.857
r_angle_other_deg1.397
r_mcbond_it1.224
r_mcbond_other0.255
r_chiral_restr0.121
r_bond_refined_d0.022
r_gen_planes_refined0.009
r_gen_planes_other0.004
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3683
Nucleic Acid Atoms
Solvent Atoms502
Heterogen Atoms125

Software

Software
Software NamePurpose
SCALAdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
Blu-Icedata collection
XDSdata reduction