1ZR2 | pdb_00001zr2

Structure of a Synaptic gamma-delta Resolvase Tetramer Covalently Linked to two Cleaved DNAs


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP42980.2M Sodium Chloride, 0.1M Magnesium Formate, 0.1M Sodium Acetate, pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 25K
Crystal Properties
Matthews coefficientSolvent content
4.772

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 125.05α = 90
b = 125.05β = 90
c = 127.39γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42003-02-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE A10.909CHESSA1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
13.94194.90.09411.9311577109873.141.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.994.90.09411.93

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMIRTHROUGHOUT3.934.59694928110031000.269750.263820.250.322370.29RANDOM97.11
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.668
r_dihedral_angle_3_deg20.576
r_dihedral_angle_4_deg19.575
r_dihedral_angle_1_deg5.439
r_angle_refined_deg1.329
r_nbtor_refined0.31
r_nbd_refined0.232
r_symmetry_vdw_refined0.182
r_xyhbond_nbd_refined0.165
r_symmetry_hbond_refined0.094
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2838
Nucleic Acid Atoms1422
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
SOLVEphasing