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SiaP R147E mutant in complex with sialylamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V4C PDB ENTRY 2V4C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 277 35 MG/ML SIAP (IN 20 MM HEPES, 10 MM NACL, 20 MM SIALYLAMIDE, PH 8.0) WITH AN EQUIVOLUME OF RESERVOIR SOLUTION (100MM MES PH 6.0 28.5% PEG 6K, 2% (W/V) BENZAMIDINE HYDROCHLORIDE HYDRATE); TEMPERATURE 277K
Crystal Properties Matthews coefficient Solvent content 2.2 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.86 α = 90 b = 74.76 β = 90 c = 87.17 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 2009-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 1.54 29.06 100 0.12 11.9 7.3 47100 2.5 14.4
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 1.54 1.62 100 0.97 2.5 7.3
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 THROUGHOUT PDB ENTRY 2V4C 1.54 28.37 44650 2384 100 0.13287 0.13037 0.1453 0.17891 0.188 RANDOM 14.015
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] -0.28 -0.48 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.196 r_dihedral_angle_4_deg 14.963 r_dihedral_angle_3_deg 13.648 r_dihedral_angle_1_deg 5.703 r_scangle_it 5.469 r_scbond_it 3.778 r_mcangle_it 2.316 r_rigid_bond_restr 1.565 r_angle_refined_deg 1.555 r_mcbond_it 1.525
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.196 r_dihedral_angle_4_deg 14.963 r_dihedral_angle_3_deg 13.648 r_dihedral_angle_1_deg 5.703 r_scangle_it 5.469 r_scbond_it 3.778 r_mcangle_it 2.316 r_rigid_bond_restr 1.565 r_angle_refined_deg 1.555 r_mcbond_it 1.525 r_angle_other_deg 1.007 r_mcbond_other 0.558 r_chiral_restr 0.101 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2426 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling REFMAC phasing