1UWU

Structure of beta-glycosidase from Sulfolobus solfataricus in complex with D-glucohydroximo-1,5-lactam


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UWQPDB ENTRY 1UWQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
14.611-14% PEG 4K, 0.1 M NA ACETATE, 0.2 M AMMONIUM ACETATE. CRYO - 25% ETHYLENE GLYCOL, 10-13 MG/ML PROTEIN, pH 4.60
Crystal Properties
Matthews coefficientSolvent content
3.463.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 168.036α = 90
b = 168.036β = 90
c = 95.742γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDTOROIDAL MIRROR2003-06-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-4ESRFID14-4

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
11.9540990.1029.155.3110958
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)
11.952.0299.20.3712.954.4

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1UWQ1.95141.421027165361960.1940.1930.229RANDOM33.95
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]
-0.79-0.39-0.791.18
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.911
r_scangle_it3.343
r_scbond_it2.178
r_angle_refined_deg1.385
r_mcangle_it1.361
r_mcbond_it0.73
r_nbd_refined0.201
r_symmetry_vdw_refined0.157
r_symmetry_hbond_refined0.134
r_xyhbond_nbd_refined0.122
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.911
r_scangle_it3.343
r_scbond_it2.178
r_angle_refined_deg1.385
r_mcangle_it1.361
r_mcbond_it0.73
r_nbd_refined0.201
r_symmetry_vdw_refined0.157
r_symmetry_hbond_refined0.134
r_xyhbond_nbd_refined0.122
r_chiral_restr0.107
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
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 Atoms7878
Nucleic Acid Atoms
Solvent Atoms881
Heterogen Atoms38

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing