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Structure of MosA from S. meliloti with pyruvate bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DHP PDB ENTRY 1DHP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 2M AMMONIUM SULFATE, 100 MM TRIS BUFFER PH = 8.0, AND 2% V/V PEG400
Crystal Properties Matthews coefficient Solvent content 2.24 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.9 α = 90 b = 138.7 β = 90 c = 123.2 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 105 CCD MARRESEARCH VERTICALLY FOCUSING MIRROR 2006-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 CLSI 08ID-1
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 19.75 93.4 0.11 8.4 3.3 77820 -3
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 2.14 74.4 0.29 3.9 2.5
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1DHP 1.95 19.75 39385 2073 100 0.214 0.28 0.281 RANDOM 19.7
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] -0.01 0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.393 r_dihedral_angle_3_deg 20.613 r_dihedral_angle_4_deg 16.339 r_dihedral_angle_1_deg 8.036 r_scangle_it 4.578 r_scbond_it 3.091 r_angle_refined_deg 2.288 r_mcangle_it 1.721 r_mcbond_it 1.145 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.393 r_dihedral_angle_3_deg 20.613 r_dihedral_angle_4_deg 16.339 r_dihedral_angle_1_deg 8.036 r_scangle_it 4.578 r_scbond_it 3.091 r_angle_refined_deg 2.288 r_mcangle_it 1.721 r_mcbond_it 1.145 r_nbtor_refined 0.307 r_xyhbond_nbd_refined 0.27 r_nbd_refined 0.26 r_symmetry_vdw_refined 0.255 r_chiral_restr 0.162 r_symmetry_hbond_refined 0.078 r_bond_refined_d 0.024 r_gen_planes_refined 0.009 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 4408 Nucleic Acid Atoms Solvent Atoms 155 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction XDS data scaling PHASER phasing