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Crystal structure of a ntf2-like protein of unknown function (mll8193) from mesorhizobium loti at 1.60 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 0.2000M (NH4)2HCitrate, 20.0000% PEG-3350, No Buffer pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.36 47.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.11 α = 90 b = 45.11 β = 90 c = 136.6 γ = 90
Symmetry Space Group P 43 21 2
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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.94645,0.97965 APS 23-ID-B
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 1.6 28.904 99.6 0.063 13.65 6.94 19510 -3 20.689
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 1.6 1.66 98 1.036 1.45
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 1.6 28.904 19433 990 99.7 0.169 0.167 0.1755 0.2 0.2072 RANDOM 27.375
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] 0.69 0.69 -1.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.553 r_dihedral_angle_4_deg 16.245 r_dihedral_angle_3_deg 11.774 r_scangle_it 6.392 r_dihedral_angle_1_deg 5.746 r_scbond_it 4.443 r_mcangle_it 2.742 r_mcbond_it 2.334 r_angle_refined_deg 1.596 r_angle_other_deg 0.936
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.553 r_dihedral_angle_4_deg 16.245 r_dihedral_angle_3_deg 11.774 r_scangle_it 6.392 r_dihedral_angle_1_deg 5.746 r_scbond_it 4.443 r_mcangle_it 2.742 r_mcbond_it 2.334 r_angle_refined_deg 1.596 r_angle_other_deg 0.936 r_mcbond_other 0.527 r_symmetry_vdw_other 0.38 r_symmetry_vdw_refined 0.333 r_xyhbond_nbd_refined 0.247 r_nbd_refined 0.227 r_nbd_other 0.222 r_nbtor_refined 0.177 r_symmetry_hbond_refined 0.165 r_chiral_restr 0.099 r_nbtor_other 0.088 r_bond_refined_d 0.018 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 956 Nucleic Acid Atoms Solvent Atoms 111 Heterogen Atoms 11
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