7OMS

Bs164 in complex with mannocyclophellitol aziridine


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6T7G 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.1 M ammonium tartrate pH 7.0, 13 % PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.5351.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.335α = 92.272
b = 103.959β = 97.708
c = 170.127γ = 106.397
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELDECTRIS PILATUS 6M-F2019-09-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.976246DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)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
12.0599.59798.10.983.23.5277094
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.052.090.6550.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE6T7G2.0599.42764131362497.8140.2250.22310.258346.039
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]
1.4512.825-2.6233.296-0.177-5.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.282
r_dihedral_angle_4_deg22.399
r_dihedral_angle_3_deg15.5
r_lrange_other7.785
r_lrange_it7.784
r_dihedral_angle_1_deg7.648
r_scangle_it6.222
r_scangle_other6.222
r_mcangle_it5.703
r_mcangle_other5.703
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.282
r_dihedral_angle_4_deg22.399
r_dihedral_angle_3_deg15.5
r_lrange_other7.785
r_lrange_it7.784
r_dihedral_angle_1_deg7.648
r_scangle_it6.222
r_scangle_other6.222
r_mcangle_it5.703
r_mcangle_other5.703
r_scbond_it4.341
r_scbond_other4.341
r_mcbond_other4.217
r_mcbond_it4.216
r_angle_refined_deg1.437
r_angle_other_deg1.287
r_symmetry_xyhbond_nbd_refined0.296
r_nbd_other0.277
r_nbd_refined0.198
r_symmetry_nbd_refined0.185
r_symmetry_nbd_other0.179
r_nbtor_refined0.171
r_xyhbond_nbd_refined0.16
r_xyhbond_nbd_other0.114
r_symmetry_nbtor_other0.076
r_chiral_restr0.067
r_ncsr_local_group_40.065
r_ncsr_local_group_130.065
r_ncsr_local_group_50.064
r_ncsr_local_group_150.064
r_ncsr_local_group_120.063
r_ncsr_local_group_140.062
r_ncsr_local_group_10.061
r_ncsr_local_group_80.061
r_ncsr_local_group_90.061
r_ncsr_local_group_100.061
r_ncsr_local_group_20.06
r_ncsr_local_group_30.06
r_ncsr_local_group_110.06
r_ncsr_local_group_60.059
r_ncsr_local_group_70.059
r_symmetry_xyhbond_nbd_other0.057
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms31275
Nucleic Acid Atoms
Solvent Atoms795
Heterogen Atoms134

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
xia2data scaling
PHASERphasing