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Crystal structure of a putative peptide binding protein (RUMGNA_00914) from Ruminococcus gnavus ATCC 29149 at 1.60 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 2.400000000M (NH4)2SO4, 0.1M Citrate pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.96 37.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.963 α = 90 b = 62.963 β = 90 c = 52.978 γ = 120
Symmetry Space Group P 31 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2010-06-10 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97917,0.97874 SSRL BL11-1
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 27.264 98.8 0.034 20.91 16202 -3 23.83
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) 1.6 1.66 97.3 0.628 2.5
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 27.264 16192 821 98.82 0.1612 0.1596 0.1716 0.1956 0.2028 RANDOM 33.7307
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] 1.48 0.74 1.48 -2.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.887 r_dihedral_angle_4_deg 15.391 r_dihedral_angle_3_deg 12.691 r_scangle_it 6.993 r_dihedral_angle_1_deg 5.365 r_scbond_it 4.789 r_mcangle_it 3.028 r_mcbond_it 1.896 r_angle_refined_deg 1.598 r_angle_other_deg 1.016
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.887 r_dihedral_angle_4_deg 15.391 r_dihedral_angle_3_deg 12.691 r_scangle_it 6.993 r_dihedral_angle_1_deg 5.365 r_scbond_it 4.789 r_mcangle_it 3.028 r_mcbond_it 1.896 r_angle_refined_deg 1.598 r_angle_other_deg 1.016 r_mcbond_other 0.596 r_chiral_restr 0.111 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 953 Nucleic Acid Atoms Solvent Atoms 109 Heterogen Atoms 11
Software Software Software Name Purpose SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing