☰ Navigation Tabs
Crystal structure of the fifth immunoglobulin domain (Ig5) of human Robo1 in complex with the mutant scFv fragment (P103A) of murine monoclonal antibody B5209B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 85mM Tris-HCl (pH 8.5), 27.5% (w/v) PEG 4000, 170mM lithium sulfate monohydrate, 670mM sodium thiocyanate, 15% (v/v) glycerol
Crystal Properties Matthews coefficient Solvent content 2.46 49.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.766 α = 90 b = 150.219 β = 90 c = 66.852 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RAYONIX MX300HE 2013-07-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9000 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.3 50 95.1 7.4 5.6 30034
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.31 50 28519 1493 94 0.27374 0.27266 0.29471 0.2423 RANDOM 27.941
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] -1.36 -0.58 1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.386 r_dihedral_angle_3_deg 18.16 r_dihedral_angle_4_deg 16.472 r_dihedral_angle_1_deg 8.759 r_long_range_B_refined 6.417 r_long_range_B_other 6.357 r_scangle_other 2.977 r_mcangle_it 2.856 r_mcangle_other 2.855 r_scbond_it 1.769
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.386 r_dihedral_angle_3_deg 18.16 r_dihedral_angle_4_deg 16.472 r_dihedral_angle_1_deg 8.759 r_long_range_B_refined 6.417 r_long_range_B_other 6.357 r_scangle_other 2.977 r_mcangle_it 2.856 r_mcangle_other 2.855 r_scbond_it 1.769 r_scbond_other 1.756 r_mcbond_it 1.693 r_mcbond_other 1.692 r_angle_refined_deg 1.608 r_angle_other_deg 1.047 r_chiral_restr 0.088 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4866 Nucleic Acid Atoms Solvent Atoms 333 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction Coot model building PHASER phasing