5OAN

Crystal structure of mutant AChBP in complex with glycine (T53F, Q74R, Y110A, I135S, G162E, S206CCP_KGTG)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5OAD 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.6293Reservoir solution:2 M sodium formate, 0.1 M sodium acetate pH 4.6 . Protein buffer: 50 mM tris, 250 mM NaCl, 0.1 M glycine
Crystal Properties
Matthews coefficientSolvent content
2.6353.25

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89.919α = 90
b = 100.266β = 90
c = 165.238γ = 90
Symmetry
Space GroupP 2 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray150CCDRIGAKU SATURN 944+2016-06-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.54157

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
12.632.999.30.14911.97.34673617.9
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)
12.62.6999.50.6323.27.3

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 REPLACEMENTTHROUGHOUT5OAD2.632.944310238199.90.2040.2020.235RANDOM28.09
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]
0.6-0.680.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.792
r_dihedral_angle_4_deg22.767
r_dihedral_angle_3_deg15.51
r_dihedral_angle_1_deg6.478
r_long_range_B_refined6.175
r_long_range_B_other6.165
r_mcangle_it3.484
r_mcangle_other3.484
r_scangle_other3.129
r_mcbond_it1.98
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.792
r_dihedral_angle_4_deg22.767
r_dihedral_angle_3_deg15.51
r_dihedral_angle_1_deg6.478
r_long_range_B_refined6.175
r_long_range_B_other6.165
r_mcangle_it3.484
r_mcangle_other3.484
r_scangle_other3.129
r_mcbond_it1.98
r_mcbond_other1.98
r_scbond_it1.798
r_scbond_other1.798
r_angle_refined_deg1.413
r_angle_other_deg0.931
r_chiral_restr0.084
r_bond_refined_d0.01
r_bond_other_d0.006
r_gen_planes_refined0.005
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 Atoms8351
Nucleic Acid Atoms
Solvent Atoms250
Heterogen Atoms45

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing