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BETA-N-ACETYLHEXOSAMINIDASE MUTANT E540D COMPLEXED WITH DI-N ACETYL-D-GLUCOSAMINE (CHITOBIASE)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C7S PDB ENTRY 1C7S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 CO-CRYSTALS WERE GROWN BY THE HANGING-DROP VAPOR DIFFUSION METHOD. RESERVOIR BUFFER CONTAINED 2.3 MOLAR AMMONIUM SULFATE AND 100 MILLIMOLAR CACODYLATE BUFFER PH 4.8. PROTEIN SOLUTION 40 MILLIGRAM PER MILLILITER WAS MIXED WITH AN EQUAL VOLUME OF RESERVOIR CONTAINING 10 MILLIMOLAR DI-NAG. CRYSTALS ABOUT 0.5 X 0.2 X 0.2 MILLIMETER IN SIZE WERE FORMED WITHIN 2-3 DAYS., VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.45 49.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.174 α = 90 b = 99.416 β = 90 c = 86.556 γ = 90
Symmetry Space Group P 21 21 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 IMAGE PLATE MARRESEARCH 300 MM IMAGE PLATE 1999-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 1.9 10 96.9 0.055 10122.5 71983 20.95
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) 1.9 1.97 94 0.217 2.9
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT R-FREE PDB ENTRY 1C7S 1.9 10 71983 3626 96.9 0.191 0.1899 0.246 0.2357 RANDOM R VALUE (WORKING TEST SET) : 0.204 25.7
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]
RMS Deviations Key Refinement Restraint Deviation p_orthonormal_tor 25.1 p_staggered_tor 15.6 p_scangle_it 4.076 p_planar_tor 3.9 p_scbond_it 3.189 p_mcangle_it 2.333 p_mcbond_it 1.802 p_multtor_nbd 0.241 p_singtor_nbd 0.196 p_xyhbond_nbd 0.171
RMS Deviations Key Refinement Restraint Deviation p_orthonormal_tor 25.1 p_staggered_tor 15.6 p_scangle_it 4.076 p_planar_tor 3.9 p_scbond_it 3.189 p_mcangle_it 2.333 p_mcbond_it 1.802 p_multtor_nbd 0.241 p_singtor_nbd 0.196 p_xyhbond_nbd 0.171 p_planar_d 0.038 p_angle_d 0.032 p_bond_d 0.017 p_angle_deg p_hb_or_metal_coord p_plane_restr p_chiral_restr p_xhyhbond_nbd p_transverse_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6776 Nucleic Acid Atoms Solvent Atoms 834 Heterogen Atoms 49
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement ARP model building