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Crystal structure of Protein of unknown function (DUF861) with a RmlC-like cupin fold (17741406) from AGROBACTERIUM TUMEFACIENS str. C58 (Dupont) at 1.64 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 1.4M Na3Citrate, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.84 56.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.254 α = 90 b = 95.254 β = 90 c = 83.155 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 2008-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 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 1.64 29.285 99.5 0.084 0.084 5.927 7.3 34348 17.626
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 1.64 1.68 94.3 0.371 0.371 2.1 5.1 2419
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 SAD THROUGHOUT 1.64 29.285 34317 1735 99.53 0.143 0.142 0.1506 0.16 0.1674 RANDOM 19.806
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] 0.3 0.15 0.3 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.322 r_dihedral_angle_4_deg 15.484 r_dihedral_angle_3_deg 12.408 r_dihedral_angle_1_deg 5.882 r_scangle_it 3.835 r_scbond_it 2.61 r_mcangle_it 2.532 r_mcbond_it 2.255 r_angle_refined_deg 1.605 r_angle_other_deg 0.865
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.322 r_dihedral_angle_4_deg 15.484 r_dihedral_angle_3_deg 12.408 r_dihedral_angle_1_deg 5.882 r_scangle_it 3.835 r_scbond_it 2.61 r_mcangle_it 2.532 r_mcbond_it 2.255 r_angle_refined_deg 1.605 r_angle_other_deg 0.865 r_mcbond_other 0.507 r_symmetry_vdw_other 0.317 r_symmetry_vdw_refined 0.313 r_nbd_other 0.213 r_nbd_refined 0.188 r_xyhbond_nbd_refined 0.18 r_nbtor_refined 0.177 r_symmetry_hbond_refined 0.143 r_chiral_restr 0.088 r_nbtor_other 0.086 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1758 Nucleic Acid Atoms Solvent Atoms 300 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHARP phasing