☰ Navigation Tabs
Crystal structure of Tyr24 phosphorylated Annexin A2 at 3.4 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HYW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 296 0.1 M Tris pH 8.5, 10% ethanol
Crystal Properties Matthews coefficient Solvent content 3.4 63.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.37 α = 90 b = 99.2 β = 90 c = 173.02 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 PIXEL DECTRIS PILATUS 2M-F 2015-12-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) 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 3.4 86.51 99.23 0.083 0.999 15.76 4.9 15062
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.4 3.52 99.86 0.816 2.91 3.84
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 FREE R-VALUE 2HYW 3.4 86.51 14312 714 99.16 0.19871 0.19695 0.2025 0.23403 0.2337 RANDOM 89.48
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] 0.8 0.53 -1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.782 r_dihedral_angle_4_deg 17.429 r_dihedral_angle_3_deg 16.349 r_long_range_B_refined 11.865 r_long_range_B_other 11.864 r_scangle_other 9.018 r_mcangle_it 8.62 r_mcangle_other 8.619 r_scbond_it 5.789 r_scbond_other 5.781
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.782 r_dihedral_angle_4_deg 17.429 r_dihedral_angle_3_deg 16.349 r_long_range_B_refined 11.865 r_long_range_B_other 11.864 r_scangle_other 9.018 r_mcangle_it 8.62 r_mcangle_other 8.619 r_scbond_it 5.789 r_scbond_other 5.781 r_dihedral_angle_1_deg 5.722 r_mcbond_it 5.591 r_mcbond_other 5.588 r_angle_refined_deg 1.402 r_angle_other_deg 0.979 r_chiral_restr 0.069 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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 4984 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing