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Crystal structure of the E2 domain of APLP1 in complex with heparin hexasaccharide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 298 25% PEG 3350, 0.1 M bis-tris, 0.2 M Li2SO4, 25 mM ATP, pH 6.5, microbatch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.78 55.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.183 α = 90 b = 81.899 β = 90 c = 90.79 γ = 90
Symmetry Space Group P 21 21 21
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 QUANTUM 315r mirrors 2010-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.075 NSLS X25
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 2.2 40 100 0.073 7.1 27708 27708 2 2
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 MOLECULAR REPLACEMENT THROUGHOUT 2.21 39.7 24135 2684 96.96 0.22275 0.21788 0.2299 0.26667 0.2841 RANDOM 37.667
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] -1.64 1.25 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.202 r_scangle_it 17.595 r_dihedral_angle_4_deg 15.441 r_dihedral_angle_3_deg 14.556 r_scbond_it 14.279 r_mcangle_it 8.435 r_mcbond_it 6.436 r_angle_refined_deg 1.134 r_dihedral_angle_1_deg 0.911 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.202 r_scangle_it 17.595 r_dihedral_angle_4_deg 15.441 r_dihedral_angle_3_deg 14.556 r_scbond_it 14.279 r_mcangle_it 8.435 r_mcbond_it 6.436 r_angle_refined_deg 1.134 r_dihedral_angle_1_deg 0.911 r_chiral_restr 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2995 Nucleic Acid Atoms Solvent Atoms 275 Heterogen Atoms 86
Software Software Software Name Purpose CBASS data collection PHASER phasing CNS refinement HKL-2000 data reduction HKL-2000 data scaling