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Atomic Resolution Structure of the bacterial sialidase NanI from Clostridium perfringens in complex with alpha-Sialic Acid (Neu5Ac).
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SLL PDB ENTRY 1SLL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 20 % PEG 3350, 0.2M POTASSIUM NITRATE, pH 7.00
Crystal Properties Matthews coefficient Solvent content 2.5 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.981 α = 90 b = 69.413 β = 90 c = 72.694 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 CCD MIRRORS 2004-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 0.97 57 91 0.1 11.8 3.8 290992
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 0.97 1.03 87 0.19 5 3.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 FREE R-VALUE PDB ENTRY 1SLL 0.97 57 264777 13089 91.8 0.1133 0.1134 0.1331 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 11 3285.2 4037.5
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.11 s_zero_chiral_vol 0.103 s_approx_iso_adps 0.092 s_anti_bump_dis_restr 0.081 s_from_restr_planes 0.0348 s_similar_adp_cmpnt 0.032 s_angle_d 0.031 s_bond_d 0.016 s_rigid_bond_adp_cmpnt 0.006 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3524 Nucleic Acid Atoms Solvent Atoms 485 Heterogen Atoms 35
Software Software Software Name Purpose SHELXL-97 refinement MOSFLM data reduction SCALA data scaling CNS phasing