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Crystal Structure of the Enterococcus faecalis Methionine aminopeptidase apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1C21 PDB ENTRY 1C21
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 298 14-20% PEG 3400, 0.14M (NH4)2H-citrate, 8% glycerol, pH 5.4-6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.8 56.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.74 α = 90 b = 132.13 β = 133.36 c = 85.3 γ = 90
Symmetry Space Group C 1 2 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 2011-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.99190 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.3 45.22 99 0.052 0.033 3.5 43107
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1C21 2.3 36.47 1397 40925 2157 99.92 0.19995 0.19707 0.25484 0.2517 RANDOM 37.177
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 r_dihedral_angle_2_deg 34.578 r_dihedral_angle_3_deg 20.263 r_dihedral_angle_4_deg 19.508 r_dihedral_angle_1_deg 7.645 r_scangle_it 5.27 r_scbond_it 3.305 r_angle_refined_deg 2.11 r_mcangle_it 1.936 r_mcbond_it 1.07 r_chiral_restr 0.173
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.578 r_dihedral_angle_3_deg 20.263 r_dihedral_angle_4_deg 19.508 r_dihedral_angle_1_deg 7.645 r_scangle_it 5.27 r_scbond_it 3.305 r_angle_refined_deg 2.11 r_mcangle_it 1.936 r_mcbond_it 1.07 r_chiral_restr 0.173 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5557 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms 26
Software Software Software Name Purpose APEX data collection MOLREP phasing REFMAC refinement iMOSFLM data reduction SCALA data scaling