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Crystal structure of the Sulfolobus solfataricus alpha-glucosidase MalA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XSI Trimmed polyalanine version of PDB CODE 1XSI (A chain)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.1 298 11% PEG 4000, 0.2 M sodium citrate, 0.1 M sodium acetate, microseeding, pH 4.1, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.71 54.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.17 α = 90 b = 173.56 β = 108 c = 154.08 γ = 90
Symmetry Space Group P 1 21 1
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 MARMOSAIC 225 mm CCD 2004-12-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9791 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 2.55 35 99.2 0.087 16.78 7.5 167412 167412 35.6
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) 2.55 2.65 0.304 7.1 7.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 Trimmed polyalanine version of PDB CODE 1XSI (A chain) 2.55 34.25 167412 167412 8380 99.9 0.17 0.17 0.1707 0.195 0.1947 RANDOM 34.8
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] 9.23 7.06 -5.69 -3.54
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24 c_scangle_it 3.01 c_scbond_it 1.97 c_mcangle_it 1.89 c_angle_deg 1.3 c_mcbond_it 1.14 c_improper_angle_d 0.77 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24 c_scangle_it 3.01 c_scbond_it 1.97 c_mcangle_it 1.89 c_angle_deg 1.3 c_mcbond_it 1.14 c_improper_angle_d 0.77 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 34115 Nucleic Acid Atoms Solvent Atoms 1263 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling MOLREP phasing RESOLVE phasing CNS refinement PDB_EXTRACT data extraction XDS data reduction