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Crystal structure of putative hydrolase (2632844) from Bacillus subtilis at 1.96 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 277 NANODROP, 14.0% PEG 8000, 0.2M MgCl2, 0.1M CHES pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.31 46.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.59 α = 90 b = 97.55 β = 110.01 c = 88.27 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2006-04-30 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837, 0.97934 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 1.96 48.795 93 0.094 0.094 6.2 2.9 85536 20.86
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) 1.96 2.07 99.8 0.464 0.464 1.5 2.8 13370
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 (All) 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 1.96 48.795 85485 4284 92.9 0.184 0.184 0.181 0.1876 0.239 0.2435 RANDOM 21.467
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] 0.73 -0.22 -0.62 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.019 r_dihedral_angle_4_deg 13.436 r_dihedral_angle_3_deg 12.82 r_scangle_it 5.632 r_scbond_it 4.393 r_dihedral_angle_1_deg 4.37 r_mcangle_it 2.419 r_mcbond_it 1.626 r_angle_refined_deg 1.359 r_angle_other_deg 0.901
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.019 r_dihedral_angle_4_deg 13.436 r_dihedral_angle_3_deg 12.82 r_scangle_it 5.632 r_scbond_it 4.393 r_dihedral_angle_1_deg 4.37 r_mcangle_it 2.419 r_mcbond_it 1.626 r_angle_refined_deg 1.359 r_angle_other_deg 0.901 r_mcbond_other 0.628 r_symmetry_vdw_other 0.256 r_nbd_refined 0.203 r_nbd_other 0.193 r_nbtor_refined 0.185 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.168 r_symmetry_vdw_refined 0.138 r_metal_ion_refined 0.091 r_nbtor_other 0.085 r_chiral_restr 0.082 r_xyhbond_nbd_other 0.027 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9225 Nucleic Acid Atoms Solvent Atoms 985 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction autoSHARP phasing