6EUI

The GH43, Beta 1,3 Galactosidase, BT3683 with galactose


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherBT0265

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29320% PEG 3350 0.2 M Ammonium Formate
Crystal Properties
Matthews coefficientSolvent content
2.2445.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 136.38α = 90
b = 136.38β = 90
c = 53.44γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2016-02-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.97DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.7668.1999.511.55.436549

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 REPLACEMENTTHROUGHOUTBT02651.7668.1934685186099.520.170210.168030.21231RANDOM30.166
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]
0.30.150.3-0.96
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.206
r_dihedral_angle_3_deg13.198
r_dihedral_angle_4_deg8.925
r_dihedral_angle_1_deg6.468
r_long_range_B_other5.372
r_long_range_B_refined5.37
r_scangle_other4.016
r_scbond_it2.631
r_scbond_other2.631
r_mcangle_other2.615
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.206
r_dihedral_angle_3_deg13.198
r_dihedral_angle_4_deg8.925
r_dihedral_angle_1_deg6.468
r_long_range_B_other5.372
r_long_range_B_refined5.37
r_scangle_other4.016
r_scbond_it2.631
r_scbond_other2.631
r_mcangle_other2.615
r_mcangle_it2.614
r_mcbond_it1.903
r_mcbond_other1.902
r_angle_refined_deg1.508
r_angle_other_deg0.958
r_chiral_restr0.099
r_bond_refined_d0.013
r_gen_planes_refined0.008
r_bond_other_d0.002
r_gen_planes_other0.001
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_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2754
Nucleic Acid Atoms
Solvent Atoms268
Heterogen Atoms25

Software

Software
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
Aimlessdata scaling
PHASERphasing