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Novel bacterial methionine aminopeptidase inhibitors
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C27 PDB ENTRY 1C27
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 batch 7 298 10 mg/ml protein, 25% PEG 8000, 100 mM TRIS-HCl, 1-5 mM inhibitor, pH 7.0, batch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 41.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.372 α = 90 b = 63.204 β = 109.55 c = 52.508 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 ADSC QUANTUM 4 2002-01-01 M SINGLE WAVELENGTH 2 1 x-ray M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID 2
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 24.06 93.8 0.022 23.1 2.8 122471 122471
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 1.1 88.5 0.251 5.5 1.2 28624
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1C27 1 24.06 122471 122471 6169 93.82 0.137 0.136 0.136 0.1367 0.153 0.1541 RANDOM 11.162
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] -0.11 0.31 0.27 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.235 r_dihedral_angle_4_deg 14.949 r_dihedral_angle_3_deg 10.825 r_sphericity_free 8.362 r_dihedral_angle_1_deg 6.262 r_scangle_it 4.23 r_sphericity_bonded 3.943 r_scbond_it 2.873 r_mcangle_it 2.115 r_angle_refined_deg 1.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.235 r_dihedral_angle_4_deg 14.949 r_dihedral_angle_3_deg 10.825 r_sphericity_free 8.362 r_dihedral_angle_1_deg 6.262 r_scangle_it 4.23 r_sphericity_bonded 3.943 r_scbond_it 2.873 r_mcangle_it 2.115 r_angle_refined_deg 1.625 r_rigid_bond_restr 1.427 r_mcbond_it 1.409 r_mcbond_other 0.744 r_angle_other_deg 0.704 r_symmetry_vdw_other 0.316 r_symmetry_hbond_refined 0.272 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.206 r_nbd_other 0.19 r_nbtor_refined 0.176 r_symmetry_vdw_refined 0.167 r_metal_ion_refined 0.159 r_chiral_restr 0.085 r_nbtor_other 0.085 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_gen_planes_other 0.001 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2175 Nucleic Acid Atoms Solvent Atoms 388 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection SCALEPACK data scaling AMoRE phasing