4BVT

Cyanuric acid hydrolase: evolutionary innovation by structural concatenation


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ZGRPDB ENTRY 3ZGR

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17THE PROTEIN WAS DIALYSED AGAINST HEPES BUFFER WITH BARBITURIC ACID, THE FINAL CONCENTRATION OF PROTEIN WAS 2 MG/ML AND THIS WAS SET UP IN A 1:1 RATIO AGAINST 180 MM NACL, 31% V/V PEG 400 AND 100 MM HEPES PH 7.0.
Crystal Properties
Matthews coefficientSolvent content
2.7955.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 129.23α = 90
b = 129.23β = 90
c = 233.791γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315MIRRORS2012-10-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX2Australian SynchrotronMX2

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
13.0943.199.50.1412.99.7139291
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)
13.093.2696.50.623.69.2

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 3ZGR3.143.181321071999.310.166040.163740.20891RANDOM63.99
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]
0.080.080.08-0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.815
r_dihedral_angle_4_deg17.192
r_dihedral_angle_3_deg15.385
r_dihedral_angle_1_deg5.326
r_mcangle_it4.118
r_scbond_it2.787
r_mcbond_it2.503
r_mcbond_other2.49
r_angle_refined_deg1.144
r_angle_other_deg0.859
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.815
r_dihedral_angle_4_deg17.192
r_dihedral_angle_3_deg15.385
r_dihedral_angle_1_deg5.326
r_mcangle_it4.118
r_scbond_it2.787
r_mcbond_it2.503
r_mcbond_other2.49
r_angle_refined_deg1.144
r_angle_other_deg0.859
r_chiral_restr0.053
r_bond_refined_d0.007
r_bond_other_d0.005
r_gen_planes_refined0.004
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5362
Nucleic Acid Atoms
Solvent Atoms9
Heterogen Atoms34

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing