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Crystal structure of 3-ketoacyl-(acyl-carrier-protein) reductase Rickettsia prowazekii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EMK pdb entry 3emk modified by ccp4 program chainsaw
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 290 JCSG+ SCREEN D3: 100MM NA/K PO4, 50% PEG 200, 200MM NACL, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.35 47.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.16 α = 90 b = 74.16 β = 90 c = 183.01 γ = 90
Symmetry Space Group P 41 21 2
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 RIGAKU SATURN 944 2008-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 2.25 19.61 97.9 0.056 20.7 24573 -3 44.7
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 2.25 2.31 93 0.375 2.3
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 MR THROUGHOUT pdb entry 3emk modified by ccp4 program chainsaw 2.25 19.61 24573 24573 1256 98.1 0.216 0.216 0.213 0.2164 0.274 0.2757 RANDOM 30.16
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] 0.2 0.2 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.182 r_dihedral_angle_4_deg 18.21 r_dihedral_angle_3_deg 16.264 r_dihedral_angle_1_deg 6.692 r_scangle_it 3.469 r_scbond_it 2.123 r_angle_refined_deg 1.6 r_mcangle_it 1.571 r_angle_other_deg 0.939 r_mcbond_it 0.853
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.182 r_dihedral_angle_4_deg 18.21 r_dihedral_angle_3_deg 16.264 r_dihedral_angle_1_deg 6.692 r_scangle_it 3.469 r_scbond_it 2.123 r_angle_refined_deg 1.6 r_mcangle_it 1.571 r_angle_other_deg 0.939 r_mcbond_it 0.853 r_mcbond_other 0.234 r_chiral_restr 0.085 r_bond_refined_d 0.017 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3252 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling