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First and second Ig domains from human Robo1 (Form 2)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V9Q PDB ENTRY 2V9Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 12% PEG 6000, 0.1M LISO4, 0.1M NA CITRATE, pH 5.6
Crystal Properties Matthews coefficient Solvent content 2.1 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.46 α = 90 b = 108.1 β = 90 c = 25.03 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 ADSC CCD MIRROR 2006-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 30 97.7 0.05 15.6 3.8 54927
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.1 94.1 0.2 7 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2V9Q 2 30 14074 751 99 0.261 0.258 0.264 0.335 0.3442 RANDOM 18.74
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] 2.87 -2.54 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.337 r_dihedral_angle_3_deg 20.605 r_dihedral_angle_4_deg 13.674 r_dihedral_angle_1_deg 7.291 r_scangle_it 2.811 r_scbond_it 1.904 r_angle_refined_deg 1.701 r_mcangle_it 1.199 r_mcbond_it 0.787 r_symmetry_vdw_refined 0.354
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.337 r_dihedral_angle_3_deg 20.605 r_dihedral_angle_4_deg 13.674 r_dihedral_angle_1_deg 7.291 r_scangle_it 2.811 r_scbond_it 1.904 r_angle_refined_deg 1.701 r_mcangle_it 1.199 r_mcbond_it 0.787 r_symmetry_vdw_refined 0.354 r_nbtor_refined 0.307 r_nbd_refined 0.231 r_symmetry_hbond_refined 0.229 r_xyhbond_nbd_refined 0.188 r_chiral_restr 0.117 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1531 Nucleic Acid Atoms Solvent Atoms 53 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing