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Human Type 1 methionine aminopeptidase in complex with ovalicin at 1.1 Ang
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B3K PDB entry 2B3K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 4-6% PEG 10,000, 100 mM HEPES, pH 6.0 in equal volume of the protein 10 mg/ml in 25 mM HEPES, pH 8.0, 5 mM methionine and 150 mM KCl. To the apo crystals, 1mM cobalt chloride and 2 mM ovalicin were added, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.43 49.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.568 α = 90 b = 77.689 β = 90.63 c = 48.644 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 315 mirrors 2004-07-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.977 ALS 8.2.2
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 1.1 20 95.5 0.05 4 244734 2 2 9
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 1.12 65.2 0.311 2.7 3.5 4639
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 2B3K 1.1 20 4 244734 192673 5156 0.119 0.135 0.117 0.1235 0.145 0.1252 random
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]
RMS Deviations Key Refinement Restraint Deviation s_from_restr_planes 0.399 s_approx_iso_adps 0.151 s_non_zero_chiral_vol 0.113 s_anti_bump_dis_restr 0.076 s_bond_d 0.031
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2396 Nucleic Acid Atoms Solvent Atoms 339 Heterogen Atoms 37
Software Software Software Name Purpose ADSC data collection HKL-2000 data reduction GLRF phasing SHELXL-97 refinement HKL-2000 data scaling