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Crystal structure of sugar transporter from Clostridium phytofermentans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 294 0.2M Ammonium sulfate, 0.1M Bis-Tris pH 5.5, 25% PEG 3350, cryoprotected in 20% Glycerol, VAPOR DIFFUSION, temperature 294K, pH 5.50
Crystal Properties Matthews coefficient Solvent content 2.43 49.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.62 α = 90 b = 54.7 β = 111.78 c = 90.24 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 MAR CCD 165 mm 2007-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID APS 31-ID
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 50 97.9 0.109 3.9 2.4 80628
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 2.07 97.4 0.44 2.2
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 SAD THROUGHOUT 2 19.68 39783 2121 99.22 0.20744 0.20339 0.21 0.28284 0.2883 RANDOM 37.538
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] 0.02 -0.01 0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.021 r_dihedral_angle_3_deg 20.163 r_scbond_it 13.773 r_dihedral_angle_4_deg 12.008 r_dihedral_angle_1_deg 8.299 r_scangle_it 6.955 r_mcangle_it 6.485 r_mcbond_it 2.326 r_angle_refined_deg 2.313 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.021 r_dihedral_angle_3_deg 20.163 r_scbond_it 13.773 r_dihedral_angle_4_deg 12.008 r_dihedral_angle_1_deg 8.299 r_scangle_it 6.955 r_mcangle_it 6.485 r_mcbond_it 2.326 r_angle_refined_deg 2.313 r_nbtor_refined 0.32 r_symmetry_vdw_refined 0.248 r_nbd_refined 0.244 r_xyhbond_nbd_refined 0.231 r_chiral_restr 0.186 r_symmetry_hbond_refined 0.085 r_bond_refined_d 0.027 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4208 Nucleic Acid Atoms Solvent Atoms 265 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELX phasing REFMAC refinement PDB_EXTRACT data extraction SHELXD phasing