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Crystal structure of aldehyde dehydrogenase from bartonella henselae at 2.0A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BI9 pdb entry 1bi9 modified by ccp4 program chainsaw
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROFLUDIC MICROBATCH IN A CRYSTAL CARD 290 JCSG+ SCREEN #70: 1.1M NAMALONATE, 0.5% JEFFAMINE, 100MM HEPES, PH 7.5, BAHEA.00886.A AT 49.8 MG/ML, MICROFLUDIC MICROBATCH IN A CRYSTAL CARD, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.52 51.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94 α = 90 b = 168.2 β = 90 c = 69.31 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 MAR scanner 300 mm plate 2009-02-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B APS 23-ID-B
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 20 99.2 0.084 15.66 6.6 37273 37273 -3 32.87
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 2.05 100 0.561 3.2 6.5
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 (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 MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1bi9 modified by ccp4 program chainsaw 2 19.77 37261 37261 1861 99.4 0.175 0.175 0.173 0.1814 0.215 0.2215 RANDOM 20.88
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] -1.65 -1.05 2.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.677 r_dihedral_angle_4_deg 18.139 r_dihedral_angle_3_deg 13.609 r_dihedral_angle_1_deg 5.95 r_scangle_it 3.85 r_scbond_it 2.343 r_angle_refined_deg 1.371 r_mcangle_it 1.318 r_angle_other_deg 0.912 r_mcbond_it 0.721
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.677 r_dihedral_angle_4_deg 18.139 r_dihedral_angle_3_deg 13.609 r_dihedral_angle_1_deg 5.95 r_scangle_it 3.85 r_scbond_it 2.343 r_angle_refined_deg 1.371 r_mcangle_it 1.318 r_angle_other_deg 0.912 r_mcbond_it 0.721 r_mcbond_other 0.195 r_chiral_restr 0.085 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3646 Nucleic Acid Atoms Solvent Atoms 276 Heterogen Atoms 3
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling