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Crystal Structure of an M17 aminopeptidase from Trypanosoma Brucei, Tb427tmp.02.4440
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 293 100 mM Na Citrate pH 5.6, 0.2 M Ammonium Sulfate, 2.0 M K/Na Tartrate, 2 mM MnCl2,
5 mM MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.47 64.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.916 α = 90 b = 161.74 β = 90 c = 176.315 γ = 90
Symmetry Space Group P 21 21 21
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 2012-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 2.45 50 99.5 0.109 6 7.9 169603
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 2.45 2.49 98.5 0.975 2 7.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 2.45 30 169661 168491 8455 99.3 0.228 0.227 0.2248 0.253 0.2485 RANDOM 44.97
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] -0.86 -1.8 2.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.167 r_dihedral_angle_4_deg 13.083 r_dihedral_angle_3_deg 12.289 r_dihedral_angle_1_deg 4.409 r_angle_other_deg 0.796 r_angle_refined_deg 0.791 r_scangle_it 0.58 r_mcangle_it 0.419 r_scbond_it 0.319 r_mcbond_it 0.228
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.167 r_dihedral_angle_4_deg 13.083 r_dihedral_angle_3_deg 12.289 r_dihedral_angle_1_deg 4.409 r_angle_other_deg 0.796 r_angle_refined_deg 0.791 r_scangle_it 0.58 r_mcangle_it 0.419 r_scbond_it 0.319 r_mcbond_it 0.228 r_chiral_restr 0.055 r_mcbond_other 0.029 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22664 Nucleic Acid Atoms Solvent Atoms 769 Heterogen Atoms 124
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction BALBES phasing