1ZL9

Crystal Structure of a major nematode C.elegans specific GST (CE01613)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1TW9 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP729865% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.550

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.96α = 90
b = 88.272β = 90
c = 93.596γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4RH-COATED SI MONOCHROMATIC MIRRORS2003-02-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.9160CHESSF1

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
122599.90.128.36.4337873345021.4
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)
122.0399.90.2865.43.81636

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 REPLACEMENTTHROUGHOUT1TW92.0125327153238886799.570.17980.15220.150690.20912RANDOM20.599
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]
-0.80.89-0.09
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.81
r_scangle_it5.194
r_scbond_it3.392
r_mcangle_it2.057
r_angle_refined_deg1.748
r_angle_other_deg1.156
r_mcbond_it1.146
r_chiral_restr0.286
r_nbd_other0.26
r_symmetry_vdw_other0.244
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.81
r_scangle_it5.194
r_scbond_it3.392
r_mcangle_it2.057
r_angle_refined_deg1.748
r_angle_other_deg1.156
r_mcbond_it1.146
r_chiral_restr0.286
r_nbd_other0.26
r_symmetry_vdw_other0.244
r_nbd_refined0.22
r_symmetry_vdw_refined0.2
r_symmetry_hbond_refined0.196
r_xyhbond_nbd_refined0.177
r_nbtor_other0.09
r_bond_refined_d0.022
r_gen_planes_other0.015
r_gen_planes_refined0.012
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3298
Nucleic Acid Atoms
Solvent Atoms459
Heterogen Atoms40

Software

Software
Software NamePurpose
REFMACrefinement
Adxvdata processing
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing