3O5Q

Fk1 domain mutant A19T of FKBP51, crystal form IV, in presence of DMSO


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3O5PPDB entry 3O5P

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION7.529337.5 % PEG3350, 0.1 M NH4OAc, 0.1 M HEPES, 10 % DMSO, vapor diffusion, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.2846.05

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.396α = 90
b = 53.514β = 90
c = 56.381γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2009-12-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-40.886ESRFID14-4

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
10.94933.88594.60.0320.03219.73.574281742815.19
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
10.9491.0188.30.30.32.62.99958

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 REPLACEMENTTHROUGHOUTPDB entry 3O5P0.962074221368794.110.13080.12960.1525RANDOM9.7308
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]
-0.060.12-0.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.928
r_dihedral_angle_3_deg12.277
r_dihedral_angle_4_deg10.626
r_dihedral_angle_1_deg7.671
r_sphericity_free6.497
r_scangle_it3.693
r_sphericity_bonded3.522
r_scbond_it2.994
r_mcangle_it2.087
r_mcbond_it1.594
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.928
r_dihedral_angle_3_deg12.277
r_dihedral_angle_4_deg10.626
r_dihedral_angle_1_deg7.671
r_sphericity_free6.497
r_scangle_it3.693
r_sphericity_bonded3.522
r_scbond_it2.994
r_mcangle_it2.087
r_mcbond_it1.594
r_angle_refined_deg1.546
r_rigid_bond_restr1.219
r_angle_other_deg0.888
r_mcbond_other0.606
r_symmetry_vdw_refined0.276
r_nbd_refined0.252
r_xyhbond_nbd_refined0.233
r_nbd_other0.219
r_symmetry_vdw_other0.183
r_symmetry_hbond_refined0.18
r_nbtor_refined0.175
r_chiral_restr0.101
r_nbtor_other0.087
r_bond_refined_d0.014
r_gen_planes_refined0.007
r_gen_planes_other0.003
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms971
Nucleic Acid Atoms
Solvent Atoms242
Heterogen Atoms8

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
XSCALEdata scaling