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A-zyme, N-acetylgalactosaminidase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.25 46-50% 2-METHYL-2,4-PENTANEDIOL (MPD), 75 MM NA-CITRATE PH 6.25
Crystal Properties Matthews coefficient Solvent content 3.44 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.659 α = 90 b = 87.659 β = 90 c = 299.427 γ = 120
Symmetry Space Group P 65 2 2
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 MARRESEARCH 2004-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.3 50 98 0.08 25.7 11.3 30652 42.77
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 2.3 2.36 82.8 0.49 4.5 8.9
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 MAD THROUGHOUT 2.3 47.04 29418 1234 97.8 0.193 0.192 0.2188 0.22 0.2466 RANDOM 45.07
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] 2.55 1.28 2.55 -3.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.903 r_dihedral_angle_4_deg 19.673 r_dihedral_angle_3_deg 17.574 r_dihedral_angle_1_deg 5.636 r_scangle_it 1.153 r_mcangle_it 1.144 r_angle_refined_deg 1.141 r_mcbond_it 0.916 r_angle_other_deg 0.855 r_scbond_it 0.825
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.903 r_dihedral_angle_4_deg 19.673 r_dihedral_angle_3_deg 17.574 r_dihedral_angle_1_deg 5.636 r_scangle_it 1.153 r_mcangle_it 1.144 r_angle_refined_deg 1.141 r_mcbond_it 0.916 r_angle_other_deg 0.855 r_scbond_it 0.825 r_symmetry_vdw_other 0.206 r_nbd_other 0.191 r_nbtor_refined 0.175 r_nbd_refined 0.174 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.15 r_symmetry_vdw_refined 0.133 r_nbtor_other 0.085 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3402 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling SHELXD phasing