4AWN

Structure of recombinant human DNase I (rhDNaseI) in complex with Magnesium and Phosphate.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3DNIPDB ENTRY 3DNI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROPHANGING DROP VAPOR DIFFUSION, 0.2 M MGCL2, 0.1 M BIS-TRIS AT PH 5.5, 25% V/V PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.0339.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.96α = 90
b = 58.66β = 90
c = 96.43γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray120CCDADSC QUANTUM 3152008-04-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-1ESRFID23-1

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
11.9548.2299.90.16.887.4818022221.2
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)
11.952.0699.60.571.327.55

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 3DNI1.9550.1251796391099.8720.1690.16620.2185RANDOM23.84
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]
-2.1741.5210.652
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.771
r_dihedral_angle_4_deg17.287
r_dihedral_angle_3_deg13.157
r_dihedral_angle_1_deg6.647
r_scangle_it2.976
r_scbond_it1.902
r_angle_refined_deg1.428
r_mcangle_it1.37
r_mcbond_it0.756
r_nbtor_refined0.314
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.771
r_dihedral_angle_4_deg17.287
r_dihedral_angle_3_deg13.157
r_dihedral_angle_1_deg6.647
r_scangle_it2.976
r_scbond_it1.902
r_angle_refined_deg1.428
r_mcangle_it1.37
r_mcbond_it0.756
r_nbtor_refined0.314
r_nbd_refined0.207
r_symmetry_vdw_refined0.191
r_symmetry_hbond_refined0.185
r_metal_ion_refined0.179
r_xyhbond_nbd_refined0.132
r_chiral_restr0.102
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
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 Atoms2065
Nucleic Acid Atoms
Solvent Atoms208
Heterogen Atoms64

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALEPACKdata scaling
MOLREPphasing