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Structure of a putative chaperone protein dnaj from klebsiella pneumoniae subsp. pneumoniae mgh 78578
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 294 0.2M Ammonium acetate, 0.1M Bis-Tris, 25% PEG 3350, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.48 50.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.805 α = 81.75 b = 61.626 β = 78.71 c = 92.907 γ = 83.79
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 MIRROR 2009-06-18 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F APS 21-ID-F
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 2.2 90.54 98 0.07 0.07 30.081 3.9 66358 -3
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 2.2 2.24 97.6 0.559 0.559 2 3.4
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 (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 2.3 90.54 57758 57758 2941 98.09 0.219 0.217 0.2281 0.262 0.2612 RANDOM 25.41
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] 0.83 -1.77 1.29 -1.03 0.8 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.539 r_dihedral_angle_4_deg 12.921 r_dihedral_angle_3_deg 10.584 r_scangle_it 4.123 r_scbond_it 2.594 r_dihedral_angle_1_deg 2.524 r_mcangle_it 1.746 r_angle_refined_deg 1.743 r_mcbond_it 0.986 r_angle_other_deg 0.893
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.539 r_dihedral_angle_4_deg 12.921 r_dihedral_angle_3_deg 10.584 r_scangle_it 4.123 r_scbond_it 2.594 r_dihedral_angle_1_deg 2.524 r_mcangle_it 1.746 r_angle_refined_deg 1.743 r_mcbond_it 0.986 r_angle_other_deg 0.893 r_mcbond_other 0.274 r_chiral_restr 0.098 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 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 9275 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms
Software Software Software Name Purpose Blu-Ice data collection HKL-3000 phasing MLPHARE phasing DM model building SHELXD phasing RESOLVE model building CCP4 model building ARP/wARP model building Coot model building REFMAC refinement ADSC data collection HKL-2000 data scaling DM phasing RESOLVE phasing ARP model building CCP4 phasing