2W61

Saccharomyces cerevisiae Gas2p apostructure (E176Q mutant)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherDERIVATIVE MODEL, NOT DEPOSITED

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1100 MM SODIUM ACETATE PH 4.5; 5% ACETONE; 20% 1,4-BUTANEDIOL
Crystal Properties
Matthews coefficientSolvent content
240

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.883α = 90
b = 64.479β = 90
c = 152.038γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100RIGAKUMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
11.622098.20.0518.43.664209
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)
11.621.6896.60.254.122.9

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 REPLACEMENTTHROUGHOUTDERIVATIVE MODEL, NOT DEPOSITED1.622563183969980.1760.1750.217RANDOM27.88
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]
-0.75-0.130.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.714
r_dihedral_angle_4_deg15.846
r_dihedral_angle_3_deg11.565
r_dihedral_angle_1_deg5.725
r_scangle_it2.929
r_scbond_it2.005
r_angle_refined_deg1.278
r_mcangle_it1.264
r_mcbond_it0.872
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.714
r_dihedral_angle_4_deg15.846
r_dihedral_angle_3_deg11.565
r_dihedral_angle_1_deg5.725
r_scangle_it2.929
r_scbond_it2.005
r_angle_refined_deg1.278
r_mcangle_it1.264
r_mcbond_it0.872
r_nbtor_refined0.312
r_nbd_refined0.194
r_symmetry_vdw_refined0.174
r_xyhbond_nbd_refined0.137
r_symmetry_hbond_refined0.133
r_chiral_restr0.098
r_bond_refined_d0.012
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3732
Nucleic Acid Atoms
Solvent Atoms677
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling