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Crystal structure of the EH 1 domain from human intersectin-1 protein. Northeast Structural Genomics Consortium target HR3646e.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microbatch under oil 8.5 277 1.5M ammonium sulfate, 12% glycerol, 0.1M TrisHCl, pH 8.5, microbatch under oil , temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.75 29.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.848 α = 90 b = 32.021 β = 106.45 c = 33.287 γ = 90
Symmetry Space Group C 1 2 1
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 MAR CCD 165 mm 2008-12-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.97869 NSLS X4C
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 1.45 50 96.1 0.04 33.75 3.6 33173 31879
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) 1.45 1.5 99.3 0.222 4.9 3 3311
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.45 45.5 16237 866 99.63 0.16047 0.15963 0.1582 0.17643 0.1732 RANDOM 17.003
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] -0.34 0.04 0.44 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.613 r_dihedral_angle_3_deg 14.597 r_sphericity_free 10.275 r_dihedral_angle_4_deg 9.558 r_scangle_it 6.253 r_sphericity_bonded 6.239 r_dihedral_angle_1_deg 5.142 r_scbond_it 4.506 r_mcangle_it 3.364 r_rigid_bond_restr 2.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.613 r_dihedral_angle_3_deg 14.597 r_sphericity_free 10.275 r_dihedral_angle_4_deg 9.558 r_scangle_it 6.253 r_sphericity_bonded 6.239 r_dihedral_angle_1_deg 5.142 r_scbond_it 4.506 r_mcangle_it 3.364 r_rigid_bond_restr 2.895 r_mcbond_it 2.699 r_angle_refined_deg 0.831 r_nbtor_refined 0.321 r_nbd_refined 0.237 r_symmetry_hbond_refined 0.194 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.065 r_metal_ion_refined 0.064 r_gen_planes_refined 0.015 r_bond_refined_d 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 778 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms 6
Software Software Software Name Purpose HKL-2000 data collection SnB phasing RESOLVE model building REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling RESOLVE phasing