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X-ray crystal structure of protein mll3774 from Mesorhizobium loti, Northeast Structural Genomics Consortium Target MlR405.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 277 Protein solution: 10 mM Tris (pH 7.5), 100 mM sodium chloride, and 5 mM DTT. Reservoir solution: 100 mM MES (pH 6), PEG 4000 20% (w/v),100 mM Magnesium sulfate heptahydrate, Microbatch, under oil, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.37 63.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.378 α = 90 b = 86.378 β = 90 c = 57.69 γ = 120
Symmetry Space Group P 32 2 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 ADSC QUANTUM 4 mirrors 2010-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 0.97897 NSLS X4A
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 1.5 30 99.1 0.047 0.04 50.2 11.2 77329 76634 17.7
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 1.5 1.55 100 0.423 0.338 5.6 11.1 7716
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD THROUGHOUT 1.5 20 35963 35963 3993 100 0.179 0.17864 0.17684 0.1933 0.19486 0.2073 RANDOM 21.27
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] 0.8 0.4 0.8 -1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.987 r_dihedral_angle_4_deg 15.913 r_dihedral_angle_3_deg 11.382 r_dihedral_angle_1_deg 5.63 r_sphericity_free 3.43 r_scangle_it 3.21 r_scbond_it 2.273 r_sphericity_bonded 2.046 r_mcangle_it 1.397 r_rigid_bond_restr 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.987 r_dihedral_angle_4_deg 15.913 r_dihedral_angle_3_deg 11.382 r_dihedral_angle_1_deg 5.63 r_sphericity_free 3.43 r_scangle_it 3.21 r_scbond_it 2.273 r_sphericity_bonded 2.046 r_mcangle_it 1.397 r_rigid_bond_restr 1.38 r_angle_refined_deg 1.184 r_mcbond_it 1.014 r_nbtor_refined 0.312 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.181 r_symmetry_hbond_refined 0.15 r_xyhbond_nbd_refined 0.127 r_chiral_restr 0.077 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1221 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SHELX model building CNS refinement ADSC data collection CNS refinement XTALVIEW refinement HKL-2000 data reduction SCALEPACK data scaling SHELX phasing