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Crystal Structure Analysis of 1,5-alpha-arabinanase catalytic mutant (AbnBD147A) complexed to arabinobiose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CU9 PDB ENTRY 3CU9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Vapor diffusion, Hanging drop, Cocrystaliization 8 295 1.6M lithium sulfate, 0.1M Tris buffer pH 8, 0.5mM arabinobiose, Vapor diffusion, Hanging drop, Cocrystaliization, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.06 40.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.087 α = 90 b = 89.732 β = 90 c = 75.985 γ = 90
Symmetry Space Group C 2 2 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 IMAGE PLATE RIGAKU RAXIS IV 2007-01-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.95 50 0.082 0.067 5.6 21840 21215 14
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 3CU9 1.95 28.99 20674 2046 94.8 0.185 0.185 0.1837 0.222 0.1726 RANDOM 22.3
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] -3.4 -4.15 7.55
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.4 c_scangle_it 2.94 c_mcangle_it 2.05 c_scbond_it 1.98 c_angle_deg 1.4 c_mcbond_it 1.31 c_improper_angle_d 0.72 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.4 c_scangle_it 2.94 c_mcangle_it 2.05 c_scbond_it 1.98 c_angle_deg 1.4 c_mcbond_it 1.31 c_improper_angle_d 0.72 c_bond_d 0.006 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2521 Nucleic Acid Atoms Solvent Atoms 227 Heterogen Atoms 20
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling CNS phasing