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The Crystal Structure of the E. coli Maltose Transporter
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q12 PDB ENTRIES 1Q12 and 1OMP experimental model PDB 1OMP PDB ENTRIES 1Q12 and 1OMP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 27% PEG 400, 500mM NaCl, 100mM Sodium Hepes pH 7.5, 10mM betaine hydrochloride, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.46 64.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.26 α = 87.13 b = 95.86 β = 82.43 c = 109.99 γ = 75.75
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 300 mm CCD Si(111) Double Crystal Monochromator. Adjustable focusing mirrors in K-B geometry 2007-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D
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 2.8 50 91.4 0.092 0.092 8.3 3.6 66520 66520
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.9 64.9 0.47 0.47 1.54 2.6
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 PDB ENTRIES 1Q12 and 1OMP 2.8 47.4 59288 58103 1185 83.76 0.24223 0.24164 0.2397 0.2714 0.2696 RANDOM 83.877
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] 3.95 3.16 5.32 -2.54 -2.06 -4.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.758 r_dihedral_angle_3_deg 16.378 r_dihedral_angle_4_deg 14.172 r_dihedral_angle_1_deg 4.468 r_angle_refined_deg 0.974 r_scangle_it 0.386 r_nbtor_refined 0.296 r_mcangle_it 0.257 r_scbond_it 0.228 r_nbd_refined 0.176
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.758 r_dihedral_angle_3_deg 16.378 r_dihedral_angle_4_deg 14.172 r_dihedral_angle_1_deg 4.468 r_angle_refined_deg 0.974 r_scangle_it 0.386 r_nbtor_refined 0.296 r_mcangle_it 0.257 r_scbond_it 0.228 r_nbd_refined 0.176 r_symmetry_vdw_refined 0.167 r_mcbond_it 0.143 r_xyhbond_nbd_refined 0.107 r_symmetry_hbond_refined 0.075 r_chiral_restr 0.064 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 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 14628 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 85
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction HKL-2000 data scaling