2QIV

Structural basis for the acyl chain selectivity and mechanism of UDP-N-acetylglucosamine acyltransferase


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.62910.8-1.4 Na/K phosphate, pH 5.6-6.3, 30%-35% Dimethyl Sulfoxide (DMSO), VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.6854.12

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 96.72α = 90
b = 96.72β = 90
c = 96.72γ = 90
Symmetry
Space GroupP 21 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV2006-01-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU2001.5418

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
11.825092.30.03817.62.6252223
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)
1.821.8991.70.2872.52461

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)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 REPLACEMENTTHROUGHOUT1.8521.124090120692.70.1930.1930.1910.221RANDOM23.724
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.999
r_dihedral_angle_4_deg16.776
r_dihedral_angle_3_deg11.656
r_dihedral_angle_1_deg5.412
r_scangle_it1.126
r_angle_refined_deg1.035
r_scbond_it0.676
r_mcangle_it0.414
r_nbtor_refined0.298
r_mcbond_it0.257
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.999
r_dihedral_angle_4_deg16.776
r_dihedral_angle_3_deg11.656
r_dihedral_angle_1_deg5.412
r_scangle_it1.126
r_angle_refined_deg1.035
r_scbond_it0.676
r_mcangle_it0.414
r_nbtor_refined0.298
r_mcbond_it0.257
r_nbd_refined0.17
r_symmetry_vdw_refined0.13
r_symmetry_hbond_refined0.103
r_xyhbond_nbd_refined0.076
r_chiral_restr0.068
r_bond_refined_d0.006
r_gen_planes_refined0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1974
Nucleic Acid Atoms
Solvent Atoms343
Heterogen Atoms51

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction