☰ Navigation Tabs
Crystal structure of Enoyl-[acyl-carrier-protein] reductase (NADH) from Aquifex aeolicus VF5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JW7 PDB Entry 1JW7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 293 USING 2 MICROLITER DROPS CONTAINING EQUAL VOLUMES OF PROTEIN CONCENTRATE (10.93 mg/ml) AND RESERVOIR SOLUTION CONTAINING 0.1 M Phosphate-citrate (pH 4.2), 40% v/v PEG200, 0.15 M Sodium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.03 39.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.078 α = 90 b = 119.019 β = 90 c = 119.197 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 MARMOSAIC 225 mm CCD 2006-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.97243 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 99.9 0.089 10 11.1 70158
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 2.07 100 0.242 10.8 6886
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 Entry 1JW7 2 30 70088 3528 99.83 0.169 0.167 0.1691 0.197 0.1978 RANDOM 18.638
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] -0.98 0.61 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.064 r_dihedral_angle_4_deg 19.307 r_dihedral_angle_3_deg 12.788 r_dihedral_angle_1_deg 5.946 r_scangle_it 2.961 r_scbond_it 1.806 r_mcangle_it 1.168 r_angle_refined_deg 1.161 r_mcbond_it 0.69 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.064 r_dihedral_angle_4_deg 19.307 r_dihedral_angle_3_deg 12.788 r_dihedral_angle_1_deg 5.946 r_scangle_it 2.961 r_scbond_it 1.806 r_mcangle_it 1.168 r_angle_refined_deg 1.161 r_mcbond_it 0.69 r_nbtor_refined 0.303 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.195 r_symmetry_hbond_refined 0.15 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.083 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7456 Nucleic Acid Atoms Solvent Atoms 644 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction SERGUI data collection HKL-2000 data reduction