7BGA

Mutant F105A of recombinant beta-lactoglobulin in complex with endogenous ligand


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1BSY 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52932.6 M ammonium sulfate in 0.5 M Tris-HCl pH 8.5
Crystal Properties
Matthews coefficientSolvent content
2.5451.58

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.34α = 90
b = 53.34β = 90
c = 112.31γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDAGILENT ATLAS CCD2015-12-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SEALED TUBEAgilent SuperNova1.54

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
11.915.499.70.0670.0810.0450.997122.715168
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.9599.80.4920.6510.4190.6772.1

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-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1bsy1.913.78915127103699.5520.1890.18910.18540.2432RANDOM27.742
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]
0.0040.0020.004-0.012
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.223
r_dihedral_angle_4_deg16.409
r_dihedral_angle_3_deg13.769
r_dihedral_angle_1_deg7.472
r_lrange_it5.441
r_lrange_other5.436
r_scangle_it3.12
r_scangle_other3.06
r_mcangle_it2.482
r_mcangle_other2.482
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.223
r_dihedral_angle_4_deg16.409
r_dihedral_angle_3_deg13.769
r_dihedral_angle_1_deg7.472
r_lrange_it5.441
r_lrange_other5.436
r_scangle_it3.12
r_scangle_other3.06
r_mcangle_it2.482
r_mcangle_other2.482
r_scbond_it1.95
r_scbond_other1.905
r_angle_refined_deg1.638
r_mcbond_it1.54
r_mcbond_other1.54
r_angle_other_deg1.349
r_nbd_refined0.196
r_nbd_other0.193
r_symmetry_xyhbond_nbd_refined0.192
r_symmetry_nbd_other0.184
r_xyhbond_nbd_refined0.171
r_nbtor_refined0.154
r_symmetry_nbd_refined0.093
r_symmetry_nbtor_other0.082
r_chiral_restr0.08
r_symmetry_xyhbond_nbd_other0.012
r_bond_refined_d0.011
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1183
Nucleic Acid Atoms
Solvent Atoms123
Heterogen Atoms19

Software

Software
Software NamePurpose
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
CrysalisProdata reduction