7KOT

Energetic and structural effects of the Tanford transition on the ligand recognition of bovine Beta-lactoglobulin


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8277.150.1 M NaCl, pH 4.5 and in 0.05 M Tris-HCl, 0.1 M NaCl, pH 8.0
Crystal Properties
Matthews coefficientSolvent content
2.5451.63

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.652α = 90
b = 53.652β = 90
c = 112.021γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 200K2018-03-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.54

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
11.7446.4699.60.8983.214.119905
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)
11.741.770.89

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-VALUE1BEB1.7446.4619788101299.5920.1950.19310.228632.581
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]
0.470.2350.47-1.526
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.957
r_dihedral_angle_3_deg15.923
r_dihedral_angle_1_deg7.571
r_lrange_it6.645
r_lrange_other6.608
r_dihedral_angle_4_deg5.129
r_scangle_it4.804
r_scangle_other4.801
r_mcangle_it3.538
r_mcangle_other3.536
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.957
r_dihedral_angle_3_deg15.923
r_dihedral_angle_1_deg7.571
r_lrange_it6.645
r_lrange_other6.608
r_dihedral_angle_4_deg5.129
r_scangle_it4.804
r_scangle_other4.801
r_mcangle_it3.538
r_mcangle_other3.536
r_scbond_it3.097
r_scbond_other3.095
r_mcbond_other2.359
r_mcbond_it2.358
r_angle_refined_deg2.222
r_angle_other_deg1.497
r_symmetry_nbd_refined0.21
r_nbd_refined0.202
r_nbd_other0.196
r_symmetry_nbd_other0.187
r_nbtor_refined0.164
r_xyhbond_nbd_refined0.144
r_chiral_restr0.122
r_symmetry_xyhbond_nbd_refined0.114
r_symmetry_nbtor_other0.092
r_bond_refined_d0.019
r_gen_planes_refined0.013
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1221
Nucleic Acid Atoms
Solvent Atoms115
Heterogen Atoms17

Software

Software
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing