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Crystal structure of a putative acetylornithine deacetylase (RPA2325) from RHODOPSEUDOMONAS PALUSTRIS CGA009 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.6 277 0.2M NH4Formate, 20.0% PEG-3350, No Buffer pH 6.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.34 47.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.074 α = 90 b = 48.823 β = 111.02 c = 111.879 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 2010-01-24 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97927,0.97913 SSRL BL9-2
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 1.9 29.584 95.9 0.048 11.39 2.94 68415 -3 24.705
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 1.9 1.97 94.4 0.492 1.76
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 1.9 29.584 68322 3437 98 0.1731 0.1714 0.1804 0.2042 0.2109 RANDOM 38.3193
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] 0.38 0.4 0.98 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.604 r_dihedral_angle_4_deg 19.063 r_dihedral_angle_3_deg 12.452 r_dihedral_angle_1_deg 6.215 r_scangle_it 3.252 r_scbond_it 2.028 r_angle_refined_deg 1.418 r_mcangle_it 1.155 r_angle_other_deg 0.909 r_mcbond_it 0.646
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.604 r_dihedral_angle_4_deg 19.063 r_dihedral_angle_3_deg 12.452 r_dihedral_angle_1_deg 6.215 r_scangle_it 3.252 r_scbond_it 2.028 r_angle_refined_deg 1.418 r_mcangle_it 1.155 r_angle_other_deg 0.909 r_mcbond_it 0.646 r_mcbond_other 0.194 r_chiral_restr 0.087 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6431 Nucleic Acid Atoms Solvent Atoms 700 Heterogen Atoms 44
Software Software Software Name Purpose SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing