3HC4

BHA10 IgG1 Fab quadruple mutant variant - antibody directed at human LTBR


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3HC0PDB entry 3HC0

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP829820% PEG 4000, 200 mM calcium acetate 10 mM zinc chloride and 100 mM Tris at pH 8, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.9758.64

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 73.605α = 90
b = 118.233β = 90
c = 126.452γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2008-02-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID1.000APS31-ID

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
11.625099.50.0896676422
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)
1.621.6693.40.479

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)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 3HC01.62202266764354699.450.162020.161020.18048RANDOM16.133
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]
-0.320.57-0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.99
r_dihedral_angle_4_deg19.782
r_dihedral_angle_3_deg12.813
r_dihedral_angle_1_deg6.534
r_sphericity_free5.591
r_scangle_it2.737
r_scbond_it1.973
r_sphericity_bonded1.491
r_mcangle_it1.361
r_angle_refined_deg1.311
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.99
r_dihedral_angle_4_deg19.782
r_dihedral_angle_3_deg12.813
r_dihedral_angle_1_deg6.534
r_sphericity_free5.591
r_scangle_it2.737
r_scbond_it1.973
r_sphericity_bonded1.491
r_mcangle_it1.361
r_angle_refined_deg1.311
r_mcbond_it0.942
r_rigid_bond_restr0.932
r_angle_other_deg0.813
r_mcbond_other0.278
r_symmetry_vdw_other0.227
r_symmetry_vdw_refined0.211
r_nbd_refined0.205
r_nbd_other0.198
r_nbtor_refined0.174
r_symmetry_hbond_refined0.168
r_xyhbond_nbd_refined0.119
r_nbtor_other0.084
r_chiral_restr0.081
r_metal_ion_refined0.059
r_symmetry_metal_ion_refined0.031
r_bond_refined_d0.009
r_gen_planes_refined0.005
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3440
Nucleic Acid Atoms
Solvent Atoms385
Heterogen Atoms14

Software

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