2QL1

Structural Characterization of a Mutated, ADCC-Enhanced Human Fc Fragment


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2DTQ 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION82988% PEG 3350, 200 mM Zn Acetate, 5% Glycerol, 0.1 M Imidazole -Malate buffer, pH 8.0, VAPOR DIFFUSION, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.6854.14

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.869α = 90
b = 147.492β = 90
c = 74.315γ = 90
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray105IMAGE PLATERIGAKU RAXIS IV++mirrors2007-03-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-0071.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.5347.2592.60.1590.1597.53.18675867536
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.532.591000.6140.6141.93.1924

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2DTQ2.53447.258675826439891.420.235060.232150.29287RANDOM36.253
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]
-2.66-2.695.34
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.681
r_dihedral_angle_4_deg22.242
r_dihedral_angle_3_deg18.156
r_dihedral_angle_1_deg7.564
r_scangle_it3.03
r_angle_refined_deg1.88
r_scbond_it1.864
r_mcangle_it1.136
r_mcbond_it0.74
r_nbtor_refined0.322
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.681
r_dihedral_angle_4_deg22.242
r_dihedral_angle_3_deg18.156
r_dihedral_angle_1_deg7.564
r_scangle_it3.03
r_angle_refined_deg1.88
r_scbond_it1.864
r_mcangle_it1.136
r_mcbond_it0.74
r_nbtor_refined0.322
r_nbd_refined0.238
r_symmetry_vdw_refined0.224
r_xyhbond_nbd_refined0.2
r_symmetry_hbond_refined0.17
r_metal_ion_refined0.133
r_chiral_restr0.113
r_bond_refined_d0.016
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1675
Nucleic Acid Atoms
Solvent Atoms24
Heterogen Atoms114

Software

Software
Software NamePurpose
CrystalCleardata collection
MOLREPphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling