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Structural Genomics, the crystal structure of a putative ABC transporter domain from Porphyromonas gingivalis W83
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 277 0.1M MgCl2, 0.1M NaCl, 30% PEG400, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.89 34.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.88 α = 90 b = 59.965 β = 90 c = 110.035 γ = 90
Symmetry Space Group P 21 21 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 CCD ADSC QUANTUM 315 mirror 2006-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97937 APS 19-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 1.6 40.56 96 0.085 43.87 9.5 31663 31663
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 1.6 1.62 66.1 0.478 2.35 4.3 848
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.6 40.56 29999 29999 1591 95.99 0.17936 0.17936 0.1769 0.1769 0.22475 0.227 RANDOM 26.337
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] 0.58 -0.39 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.5 r_dihedral_angle_4_deg 20.416 r_dihedral_angle_3_deg 16.941 r_sphericity_free 16.072 r_sphericity_bonded 11.771 r_scangle_it 7.812 r_dihedral_angle_1_deg 6.371 r_scbond_it 5.959 r_mcangle_it 4.463 r_rigid_bond_restr 4.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.5 r_dihedral_angle_4_deg 20.416 r_dihedral_angle_3_deg 16.941 r_sphericity_free 16.072 r_sphericity_bonded 11.771 r_scangle_it 7.812 r_dihedral_angle_1_deg 6.371 r_scbond_it 5.959 r_mcangle_it 4.463 r_rigid_bond_restr 4.46 r_mcbond_it 3.443 r_angle_refined_deg 2.566 r_nbtor_refined 0.32 r_symmetry_vdw_refined 0.307 r_symmetry_hbond_refined 0.236 r_nbd_refined 0.212 r_chiral_restr 0.183 r_xyhbond_nbd_refined 0.153 r_bond_refined_d 0.034 r_gen_planes_refined 0.014 r_metal_ion_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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2013 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELXS phasing