5FJJ

Three-dimensional structures of two heavily N-glycosylated Aspergillus sp. Family GH3 beta-D-glucosidases


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5FJIPDB ENTRY 5FJI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.1M HEPES PH 7.5, 0.2M MAGNESIUM CHLORIDE, 30% PEG 400
Crystal Properties
Matthews coefficientSolvent content
2.448

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 139.02α = 90
b = 141.463β = 90
c = 193.339γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2001-10-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

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
11.9588.2398.40.1417.16.72710851.9
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)
11.951.9894.90.841.94.9

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 REPLACEMENTTHROUGHOUTPDB ENTRY 5FJI1.95114.432565511355897.840.217640.215650.25486RANDOM30.507
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]
3.55-0.86-2.69
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.53
r_dihedral_angle_4_deg19.223
r_dihedral_angle_3_deg13.966
r_dihedral_angle_1_deg6.442
r_mcangle_it3.134
r_scbond_it2.662
r_mcbond_it2.258
r_mcbond_other2.257
r_angle_refined_deg1.632
r_angle_other_deg1.361
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.53
r_dihedral_angle_4_deg19.223
r_dihedral_angle_3_deg13.966
r_dihedral_angle_1_deg6.442
r_mcangle_it3.134
r_scbond_it2.662
r_mcbond_it2.258
r_mcbond_other2.257
r_angle_refined_deg1.632
r_angle_other_deg1.361
r_chiral_restr0.093
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_bond_other_d0.008
r_gen_planes_other0.007
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_it
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 Atoms25744
Nucleic Acid Atoms
Solvent Atoms2106
Heterogen Atoms1982

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
Aimlessdata scaling
MOLREPphasing