4BVR

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
16.6THE PROTEIN WAS AT 1 MG/ML AFTER DIALYSIS WITH HEPES BUFFER AND CYANURIC ACID, THIS WAS ADDED IN A 3:1 RATIO TO THE RESERVIOR SOLUTION OF 38% V/V PEG 400 AND 100 MM HEPES PH 6.6
Crystal Properties
Matthews coefficientSolvent content
2.7955.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 129.075α = 90
b = 129.075β = 90
c = 229.66γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315MIRRORS2012-11-16MSINGLE 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
12.5842.51000.1412.511.1234601
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)
12.582.721000.83.111.3

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 3ZGR2.5841.5922272118899.860.178690.176280.22442RANDOM50.042
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]
0.120.120.12-0.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.867
r_dihedral_angle_4_deg17.007
r_dihedral_angle_3_deg14.332
r_dihedral_angle_1_deg5.492
r_mcangle_it5.24
r_scbond_it4.024
r_mcbond_it3.526
r_mcbond_other3.524
r_angle_refined_deg1.141
r_angle_other_deg0.812
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.867
r_dihedral_angle_4_deg17.007
r_dihedral_angle_3_deg14.332
r_dihedral_angle_1_deg5.492
r_mcangle_it5.24
r_scbond_it4.024
r_mcbond_it3.526
r_mcbond_other3.524
r_angle_refined_deg1.141
r_angle_other_deg0.812
r_chiral_restr0.061
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.003
r_gen_planes_other0.003
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 Atoms29
Heterogen Atoms34

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing