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Trypanosoma rangeli sialidase in complex with sialic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N1S pdb entry 1n1s
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 PEG-8000, sodium cacodylate, ammonium sulfate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.87 57.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.833 α = 90 b = 95.639 β = 90 c = 109.218 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 4 2000-06-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.8 50 92.6 0.098 5 18969
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.9 83.5 0.267
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1n1s 2.8 15 17813 17813 962 92.72 0.2369 0.23692 0.23518 0.26917 RANDOM 34.828
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] -0.09 -2.24 2.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.762 r_dihedral_angle_1_deg 2.595 r_angle_refined_deg 1.969 r_nbd_refined 0.238 r_mcangle_it 0.142 r_symmetry_vdw_refined 0.136 r_xyhbond_nbd_refined 0.129 r_symmetry_hbond_refined 0.095 r_mcbond_it 0.079 r_scangle_it 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.762 r_dihedral_angle_1_deg 2.595 r_angle_refined_deg 1.969 r_nbd_refined 0.238 r_mcangle_it 0.142 r_symmetry_vdw_refined 0.136 r_xyhbond_nbd_refined 0.129 r_symmetry_hbond_refined 0.095 r_mcbond_it 0.079 r_scangle_it 0.072 r_chiral_restr 0.066 r_scbond_it 0.039 r_bond_refined_d 0.002 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4816 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 21
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement