4Z95

Fab structure of antibody S1-15 in complex with ssDNA DNA, 5'-5(dT)-p-3'


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5289.150.1M Tris-HCl pH 8.5, 25% (v/v) PEG 550 MME
Crystal Properties
Matthews coefficientSolvent content
2.4649.93

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.761α = 90
b = 77.761β = 90
c = 156.525γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray113CCDMARMOSAIC 300 mm CCDVertical focusing mirror2014-06-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.9794CLSI08ID-1

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
11.792599.90.05337.79.945768043749
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)
11.791.851000.743.710

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 REPLACEMENTTHROUGHOUT4ODT1.792543749226999.860.20450.20280.2362RANDOM38.743
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]
1.451.45-2.9
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.33
r_dihedral_angle_4_deg21.453
r_dihedral_angle_3_deg13.797
r_dihedral_angle_1_deg6.851
r_mcangle_it3.329
r_mcbond_it2.256
r_mcbond_other2.254
r_angle_refined_deg1.336
r_angle_other_deg0.748
r_chiral_restr0.079
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.33
r_dihedral_angle_4_deg21.453
r_dihedral_angle_3_deg13.797
r_dihedral_angle_1_deg6.851
r_mcangle_it3.329
r_mcbond_it2.256
r_mcbond_other2.254
r_angle_refined_deg1.336
r_angle_other_deg0.748
r_chiral_restr0.079
r_bond_refined_d0.01
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3375
Nucleic Acid Atoms
Solvent Atoms275
Heterogen Atoms5

Software

Software
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction