5ARB

Cooperative bio-metallic selectivity in a tailored protease enables creation of a C-C cross-coupling Heckase


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GCIPDB ENTRY 1GCI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
115% PEG 3350, 75 MM AMMONIUM SULPHATE, 0.1 M BIS TRIS PH 5.5
Crystal Properties
Matthews coefficientSolvent content
2.2545

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 52.636α = 90
b = 61.129β = 90
c = 74.778γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray120PIXELDECTRIS PILATUS2013-09-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04DiamondI04

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
11.1547.33970.0811.65.8836292
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)
11.151.17730.362.42.7

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 1GCI1.1547.3379361419496.820.105240.104390.12092RANDOM8.907
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]
0.21-0.290.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.035
r_sphericity_free21.154
r_dihedral_angle_4_deg13.962
r_dihedral_angle_3_deg10.302
r_dihedral_angle_1_deg5.792
r_rigid_bond_restr5.125
r_sphericity_bonded4.929
r_angle_refined_deg1.588
r_scbond_it1.309
r_angle_other_deg1.085
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.035
r_sphericity_free21.154
r_dihedral_angle_4_deg13.962
r_dihedral_angle_3_deg10.302
r_dihedral_angle_1_deg5.792
r_rigid_bond_restr5.125
r_sphericity_bonded4.929
r_angle_refined_deg1.588
r_scbond_it1.309
r_angle_other_deg1.085
r_mcangle_it0.929
r_mcbond_it0.746
r_mcbond_other0.727
r_chiral_restr0.092
r_bond_refined_d0.011
r_gen_planes_refined0.008
r_bond_other_d0.003
r_gen_planes_other0.002
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_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1878
Nucleic Acid Atoms
Solvent Atoms348
Heterogen Atoms39

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling