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Crystal structure of putative peptidase (NP_348812.1) from CLOSTRIDIUM ACETOBUTYLICUM at 2.37 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.2000M MgCl2, 40.0000% MPD, 0.1M Imidazole pH 8.0, Additive: 0.006M Zinc Chloride, NANODROP', VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.79 67.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.782 α = 90 b = 153.782 β = 90 c = 168.378 γ = 120
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 collimating mirror, toroid focusing mirror 2009-07-31 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97911 SSRL BL9-2
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 2.37 29.062 99.9 0.189 0.189 9 5.5 31178 38.179
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 2.37 2.43 100 0.01 1.017 0.8 5.6 2267
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 2.37 29.062 31177 1576 99.98 0.171 0.169 0.1712 0.212 0.217 RANDOM 29.498
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] -1.3 -0.65 -1.3 1.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.367 r_dihedral_angle_4_deg 20.717 r_dihedral_angle_3_deg 15.293 r_scangle_it 7.737 r_scbond_it 5.741 r_dihedral_angle_1_deg 5.67 r_mcangle_it 3.078 r_mcbond_it 1.654 r_angle_refined_deg 1.609 r_angle_other_deg 0.934
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.367 r_dihedral_angle_4_deg 20.717 r_dihedral_angle_3_deg 15.293 r_scangle_it 7.737 r_scbond_it 5.741 r_dihedral_angle_1_deg 5.67 r_mcangle_it 3.078 r_mcbond_it 1.654 r_angle_refined_deg 1.609 r_angle_other_deg 0.934 r_mcbond_other 0.419 r_chiral_restr 0.091 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3386 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing