3H4T

Chimeric Glycosyltransferase for the generation of novel natural products - GtfAH1 in complex with UDP-2F-Glc


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1PN3PDB ENTRY 1PN3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5300Tris HCl pH 8.5, 1.2-2M ammonium sulphate, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties
Matthews coefficientSolvent content
2.8757.14

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 111.107α = 90
b = 129.693β = 90
c = 67.087γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 130 mmmirrors2007-12-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM140.977ESRFBM14

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
11.1542.899.20.0776.816948522
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)
1.151.2194.70.6475.6130919

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)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 REPLACEMENTTHROUGHOUTPDB ENTRY 1PN31.1542.822169485160958848099.110.1720.170380.169790.18191RANDOM13.102
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]
-0.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.215
r_dihedral_angle_4_deg16.647
r_dihedral_angle_3_deg10.256
r_dihedral_angle_1_deg6.916
r_scangle_it2.184
r_sphericity_free1.871
r_sphericity_bonded1.815
r_scbond_it1.528
r_angle_refined_deg1.46
r_mcangle_it1.032
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.215
r_dihedral_angle_4_deg16.647
r_dihedral_angle_3_deg10.256
r_dihedral_angle_1_deg6.916
r_scangle_it2.184
r_sphericity_free1.871
r_sphericity_bonded1.815
r_scbond_it1.528
r_angle_refined_deg1.46
r_mcangle_it1.032
r_rigid_bond_restr0.885
r_mcbond_it0.648
r_nbtor_refined0.305
r_nbd_refined0.194
r_symmetry_vdw_refined0.156
r_symmetry_hbond_refined0.109
r_xyhbond_nbd_refined0.092
r_chiral_restr0.075
r_bond_refined_d0.006
r_gen_planes_refined0.004
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2861
Nucleic Acid Atoms
Solvent Atoms589
Heterogen Atoms45

Software

Software
Software NamePurpose
HKL-3000data collection
AMoREphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling