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IspC in complex with an N-methyl-substituted hydroxamic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ONN PDB ENTRY 1ONN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 293 8% PEG 4K, 80 mM NaAc, 110mM HEPES, 100 mM Glycine, 100 mM Guanidinium-HCl, 10mM EDTA, 12mM DTT, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.99 58.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.254 α = 90 b = 54.584 β = 93.17 c = 107.798 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 Bruker Platinum 135 Mirrows 2010-08-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H 1.5418
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 2.1 50 99.9 0.072 62373 62350 2 2.5
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 2.1 2.2 99.9 0.403 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1ONN 2.1 10 2.5 58544 58544 3113 99.9 0.17 0.16593 0.16324 0.1715 0.21659 0.224 RANDOM 20.932
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] -0.17 0.08 0.26 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.623 r_dihedral_angle_4_deg 21.07 r_dihedral_angle_3_deg 16.965 r_dihedral_angle_1_deg 6.361 r_scangle_it 5.937 r_scbond_it 3.679 r_angle_refined_deg 2.05 r_mcangle_it 2.012 r_mcbond_it 1.151 r_chiral_restr 0.167
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.623 r_dihedral_angle_4_deg 21.07 r_dihedral_angle_3_deg 16.965 r_dihedral_angle_1_deg 6.361 r_scangle_it 5.937 r_scbond_it 3.679 r_angle_refined_deg 2.05 r_mcangle_it 2.012 r_mcbond_it 1.151 r_chiral_restr 0.167 r_bond_refined_d 0.025 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5963 Nucleic Acid Atoms Solvent Atoms 773 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement CNS refinement PROTEUM PLUS data collection PROTEUM PLUS data reduction PROTEUM PLUS data scaling CNS phasing