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Arabidopsis thaliana mitochondrial beta-ketoacyl ACP synthase hexanoic acid complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1W0I PDB ENTRY 1W0I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.1 M MES-BUFFER PH 6.5, 12% PEG20000, 20 MG/ML HEXANOYL-COA
Crystal Properties Matthews coefficient Solvent content 2.46 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.109 α = 90 b = 92.942 β = 106.59 c = 74.217 γ = 90
Symmetry Space Group P 1 21 1
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 MARRESEARCH 2005-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 1.95 71.1 95.6 0.11 4.8 3.7 64327 18.07
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 1.95 2.03 70.5 0.38 1.8 3.4
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 1W0I 1.95 71.07 64327 3433 99 0.197 0.195 0.206 0.224 0.2348 RANDOM 23.55
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] -1.1 2.11 -0.62 2.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.714 r_dihedral_angle_4_deg 14.583 r_dihedral_angle_3_deg 12.714 r_dihedral_angle_1_deg 4.876 r_scangle_it 1.443 r_angle_refined_deg 0.934 r_scbond_it 0.832 r_mcangle_it 0.494 r_nbtor_refined 0.296 r_mcbond_it 0.249
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.714 r_dihedral_angle_4_deg 14.583 r_dihedral_angle_3_deg 12.714 r_dihedral_angle_1_deg 4.876 r_scangle_it 1.443 r_angle_refined_deg 0.934 r_scbond_it 0.832 r_mcangle_it 0.494 r_nbtor_refined 0.296 r_mcbond_it 0.249 r_nbd_refined 0.183 r_symmetry_vdw_refined 0.132 r_symmetry_hbond_refined 0.11 r_xyhbond_nbd_refined 0.093 r_chiral_restr 0.064 r_bond_refined_d 0.006 r_gen_planes_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_refined 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 r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6444 Nucleic Acid Atoms Solvent Atoms 489 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing