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Crystal structure of a putative zn-dependent exopeptidase (bvu_1317) from bacteroides vulgatus atcc 8482 at 1.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.1 277 0.2000M NH4Acetate, 20.0000% PEG-3350, No Buffer pH 7.1, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.06 40.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.62 α = 90 b = 49.06 β = 90 c = 281.36 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2008-05-23 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91162,0.97916 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 1.8 28.583 98.8 0.04 12.89 55944 -3 24.329
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 1.8 1.86 98 0.497 1.5
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 1.8 28.583 55877 2836 99.5 0.198 0.196 0.2263 0.232 0.2625 RANDOM 16.051
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] -0.72 2.8 -2.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.16 r_dihedral_angle_4_deg 15.761 r_dihedral_angle_3_deg 11.592 r_scangle_it 6.563 r_scbond_it 4.983 r_dihedral_angle_1_deg 4.281 r_mcangle_it 3.214 r_mcbond_it 2.127 r_angle_refined_deg 1.745 r_angle_other_deg 1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.16 r_dihedral_angle_4_deg 15.761 r_dihedral_angle_3_deg 11.592 r_scangle_it 6.563 r_scbond_it 4.983 r_dihedral_angle_1_deg 4.281 r_mcangle_it 3.214 r_mcbond_it 2.127 r_angle_refined_deg 1.745 r_angle_other_deg 1.28 r_mcbond_other 0.636 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3834 Nucleic Acid Atoms Solvent Atoms 282 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing