3HKK

Structure of human Leukotriene C4 synthase in complex with glutathione sulfonate


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2UUHPDB ENTRY 2uuh

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52982M AmSO4, 0.1M Bis-Tris, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
5.953279.339

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 170.718α = 90
b = 170.718β = 90
c = 170.718γ = 90
Symmetry
Space GroupF 2 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2009-01-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-20.8726ESRFID23-2

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
12.998.56499.90.1450.1454.85625.1925961
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)
2.93.061000.8550.8550.925.41328

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 REPLACEMENTTHROUGHOUTPDB ENTRY 2uuh2.938.18921444099.980.1870.1870.1850.232RANDOM46.433
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
r_dihedral_angle_2_deg32.705
r_dihedral_angle_4_deg18.919
r_dihedral_angle_3_deg18.227
r_dihedral_angle_1_deg5.592
r_scangle_it2.954
r_scbond_it1.804
r_angle_refined_deg1.582
r_mcangle_it1.398
r_mcbond_it0.761
r_nbtor_refined0.313
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.705
r_dihedral_angle_4_deg18.919
r_dihedral_angle_3_deg18.227
r_dihedral_angle_1_deg5.592
r_scangle_it2.954
r_scbond_it1.804
r_angle_refined_deg1.582
r_mcangle_it1.398
r_mcbond_it0.761
r_nbtor_refined0.313
r_nbd_refined0.237
r_symmetry_hbond_refined0.236
r_xyhbond_nbd_refined0.168
r_symmetry_vdw_refined0.143
r_chiral_restr0.095
r_bond_refined_d0.015
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1135
Nucleic Acid Atoms
Solvent Atoms62
Heterogen Atoms87

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PXSOFTdata collection
XSCALEdata scaling