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CRYSTAL STRUCTURE OF a putative metallopeptidase (SDEN_2526) FROM SHEWANELLA DENITRIFICANS OS217 AT 1.74 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.07 277 NANODROP, 20.4% PEG 6000, 0.1M MES pH 6.07, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.02 38.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.715 α = 90 b = 127.577 β = 116.28 c = 49.303 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 KOHZU, Double crystal Si(111) 2007-09-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9794, 1.0000, 0.9797 ALS 8.2.1
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 1.74 28.82 94.7 0.047 0.047 7.6 1.9 46761 28.085
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.74 1.79 95.4 0.38 0.38 2 1.7 3475
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.74 28.82 46725 2353 94.32 0.176 0.175 0.1804 0.215 0.2221 RANDOM 28.462
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] 0.82 1.49 -1.84 2.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.16 r_dihedral_angle_4_deg 15.357 r_dihedral_angle_3_deg 13.771 r_scangle_it 8.064 r_dihedral_angle_1_deg 6.263 r_scbond_it 6.017 r_mcangle_it 3.614 r_mcbond_it 2.651 r_angle_refined_deg 1.669 r_angle_other_deg 1.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.16 r_dihedral_angle_4_deg 15.357 r_dihedral_angle_3_deg 13.771 r_scangle_it 8.064 r_dihedral_angle_1_deg 6.263 r_scbond_it 6.017 r_mcangle_it 3.614 r_mcbond_it 2.651 r_angle_refined_deg 1.669 r_angle_other_deg 1.143 r_mcbond_other 0.764 r_symmetry_vdw_other 0.232 r_nbd_refined 0.208 r_nbd_other 0.199 r_nbtor_refined 0.182 r_xyhbond_nbd_refined 0.177 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.162 r_chiral_restr 0.128 r_metal_ion_refined 0.096 r_nbtor_other 0.089 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4016 Nucleic Acid Atoms Solvent Atoms 230 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction SHARP phasing