☰ Navigation Tabs
Crystal structure of putative M42 glutamyl aminopeptidase (YP_676701.1) from Cytophaga hutchinsonii ATCC 33406 at 2.39 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 277 NANODROP, 1.0M LiCl, 10.0% PEG 6000, 0.1M MES pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.12 60.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.84 α = 90 b = 83.84 β = 90 c = 682.31 γ = 120
Symmetry Space Group P 61 2 2
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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2008-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97859 SSRL BL11-1
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 2.39 29.656 88.6 0.055 16.87 7.98 52024 -3 58.48
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 2.39 2.6 73.5 0.616 2.27
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 SAD THROUGHOUT 2.39 29.656 51910 2650 89.28 0.189 0.187 0.223 0.2787 RANDOM 35.947
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] 3.4 1.7 3.4 -5.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.862 r_dihedral_angle_3_deg 14.26 r_dihedral_angle_4_deg 12.584 r_dihedral_angle_1_deg 4.216 r_angle_refined_deg 1.818 r_angle_other_deg 1.589 r_scangle_it 1.369 r_mcangle_it 1.287 r_scbond_it 0.915 r_mcbond_it 0.776
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.862 r_dihedral_angle_3_deg 14.26 r_dihedral_angle_4_deg 12.584 r_dihedral_angle_1_deg 4.216 r_angle_refined_deg 1.818 r_angle_other_deg 1.589 r_scangle_it 1.369 r_mcangle_it 1.287 r_scbond_it 0.915 r_mcbond_it 0.776 r_mcbond_other 0.206 r_chiral_restr 0.099 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7333 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SOLVE phasing PHENIX phasing SHELXD phasing