2OP4

Crystal Structure of Quorum-Quenching Antibody 1G9


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.529810% (w/v) PEG 8000, 0.1M Imidazole, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.5351.43

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.925α = 90
b = 72.041β = 90
c = 116.143γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCDFlat mirror (vertical focusing)2007-01-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL11-11.03317SSRLBL11-1

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
12.855099.60.06226.13.6119381193883.5
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)
12.852.92499.90.5342.73.6782

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 2NTF2.8535.4110641106455699.650.202550.202550.199590.26329RANDOM50.953
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]
-0.470.71-0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.126
r_dihedral_angle_3_deg18.421
r_dihedral_angle_4_deg12.196
r_dihedral_angle_1_deg7.462
r_scangle_it1.599
r_angle_refined_deg1.488
r_scbond_it1.06
r_angle_other_deg0.837
r_mcangle_it0.721
r_mcbond_it0.527
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.126
r_dihedral_angle_3_deg18.421
r_dihedral_angle_4_deg12.196
r_dihedral_angle_1_deg7.462
r_scangle_it1.599
r_angle_refined_deg1.488
r_scbond_it1.06
r_angle_other_deg0.837
r_mcangle_it0.721
r_mcbond_it0.527
r_symmetry_vdw_other0.302
r_symmetry_vdw_refined0.242
r_nbd_refined0.227
r_nbd_other0.215
r_nbtor_refined0.2
r_symmetry_hbond_refined0.188
r_xyhbond_nbd_refined0.128
r_nbtor_other0.096
r_chiral_restr0.079
r_mcbond_other0.079
r_xyhbond_nbd_other0.041
r_bond_refined_d0.013
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3277
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms4

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing