7OMI

Bs164 in complex with mannocyclophellitol epoxide


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 6.5 , 14 % PEG 3,350
Crystal Properties
Matthews coefficientSolvent content
2.5551.79

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.452α = 92.292
b = 104.426β = 97.351
c = 170.781γ = 106.554
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray80PIXELDECTRIS EIGER2 XE 16M2021-04-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.976284DiamondI03

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
11.7665.8797.20.9947.63.1438305
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)
11.761.790.302

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-VALUE6T7G1.7665.874382132206297.150.2330.23140.260934.914
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]
1.4611.673-0.5510.1650.088-2.376
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.573
r_dihedral_angle_4_deg20.188
r_dihedral_angle_3_deg14.339
r_dihedral_angle_1_deg7.347
r_lrange_it6.06
r_lrange_other6.057
r_scangle_it4.985
r_scangle_other4.985
r_mcangle_other3.777
r_mcangle_it3.776
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.573
r_dihedral_angle_4_deg20.188
r_dihedral_angle_3_deg14.339
r_dihedral_angle_1_deg7.347
r_lrange_it6.06
r_lrange_other6.057
r_scangle_it4.985
r_scangle_other4.985
r_mcangle_other3.777
r_mcangle_it3.776
r_scbond_it3.433
r_scbond_other3.433
r_mcbond_it2.825
r_mcbond_other2.825
r_angle_other_deg2.311
r_angle_refined_deg1.422
r_nbd_other0.264
r_symmetry_xyhbond_nbd_other0.221
r_symmetry_nbd_refined0.212
r_symmetry_nbd_other0.209
r_nbd_refined0.2
r_symmetry_xyhbond_nbd_refined0.194
r_nbtor_refined0.17
r_xyhbond_nbd_refined0.137
r_chiral_restr0.071
r_symmetry_nbtor_other0.067
r_bond_other_d0.035
r_xyhbond_nbd_other0.026
r_gen_planes_other0.01
r_bond_refined_d0.008
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms31540
Nucleic Acid Atoms
Solvent Atoms2135
Heterogen Atoms314

Software

Software
Software NamePurpose
REFMACrefinement
DIALSdata reduction
xia2data scaling
REFMACphasing