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Crystal structure of a dimeric ferredoxin-like protein (jcvi_pep_1096665735785) from uncultured marine organism at 1.70 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 4.5 277 0.2M Li2SO4, 2.5M NaCl, 0.1M Acetate pH 4.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.26 45.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.89 α = 90 b = 77.79 β = 102.66 c = 43.81 γ = 90
Symmetry Space Group P 1 21 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) 2006-11-19 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97966 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 1.7 28.892 98.3 0.061 6.76 22797 21.1
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 1.7 1.76 99 0.403 2.02
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 1.7 28.892 22774 1172 99.11 0.161 0.159 0.1665 0.193 0.1979 RANDOM 20.689
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] 2.63 0.35 -0.97 -1.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.483 r_dihedral_angle_4_deg 17.156 r_dihedral_angle_3_deg 13.235 r_scangle_it 7.614 r_dihedral_angle_1_deg 5.445 r_scbond_it 5.384 r_mcangle_it 2.832 r_mcbond_it 2.427 r_angle_refined_deg 1.415 r_angle_other_deg 0.881
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.483 r_dihedral_angle_4_deg 17.156 r_dihedral_angle_3_deg 13.235 r_scangle_it 7.614 r_dihedral_angle_1_deg 5.445 r_scbond_it 5.384 r_mcangle_it 2.832 r_mcbond_it 2.427 r_angle_refined_deg 1.415 r_angle_other_deg 0.881 r_mcbond_other 0.503 r_symmetry_vdw_other 0.285 r_symmetry_vdw_refined 0.261 r_nbd_refined 0.215 r_nbd_other 0.188 r_nbtor_refined 0.187 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.145 r_nbtor_other 0.087 r_chiral_restr 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1619 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 8
Software Software Software Name Purpose MolProbity model building SOLVE phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction Blu-Ice data collection XDS data reduction