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CRYSTAL STRUCTURE OF A DIMERIC FERREDOXIN-LIKE PROTEIN (JCVI_PEP_1096672785533) FROM UNCULTURED MARINE ORGANISM AT 2.20 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 277 NANODROP, 0.2M Potassium formate, 20.0% PEG 3350, No Buffer, pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.07 40.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.558 α = 90 b = 84.629 β = 90 c = 144.952 γ = 90
Symmetry Space Group P 21 21 21
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 2006-10-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.94645, 0.97942, 0.97921 APS 23-ID-D
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 2.2 48.34 99.6 0.15 7.22 36082 25.76
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 2.2 2.28 98.8 0.683 1.8 3630
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 (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 MAD THROUGHOUT 2.2 48.34 36027 1799 99.67 0.233 0.233 0.23 0.2349 0.292 0.2948 RANDOM 27.408
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] 0.43 1.26 -1.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.52 r_dihedral_angle_4_deg 16.868 r_dihedral_angle_3_deg 11.613 r_dihedral_angle_1_deg 3.367 r_scangle_it 2.561 r_scbond_it 1.764 r_angle_refined_deg 1.51 r_mcangle_it 1.371 r_mcbond_it 0.904 r_angle_other_deg 0.863
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.52 r_dihedral_angle_4_deg 16.868 r_dihedral_angle_3_deg 11.613 r_dihedral_angle_1_deg 3.367 r_scangle_it 2.561 r_scbond_it 1.764 r_angle_refined_deg 1.51 r_mcangle_it 1.371 r_mcbond_it 0.904 r_angle_other_deg 0.863 r_mcbond_other 0.211 r_xyhbond_nbd_refined 0.195 r_symmetry_hbond_refined 0.192 r_nbd_refined 0.183 r_nbtor_refined 0.183 r_nbd_other 0.158 r_symmetry_vdw_other 0.151 r_symmetry_vdw_refined 0.144 r_chiral_restr 0.085 r_nbtor_other 0.085 r_xyhbond_nbd_other 0.028 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5307 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 36
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing