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Crystal structure of a nifx-associated protein of unknown function (afe_1514) from acidithiobacillus ferrooxidans atcc at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 NANODROP, 0.20M Li2SO4, 30.0% PEG 4000, 0.1M Tris-HCl pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.44 49.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.293 α = 90 b = 49.293 β = 90 c = 254.025 γ = 120
Symmetry Space Group P 61 2 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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-01-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837, 0.97925 SSRL BL9-2
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 2 28.228 100 0.131 0.131 4.831 4.4 13459 21.436
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 2 2.05 100 0.668 0.668 1 4.5 962
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 2 28.228 13359 659 99.95 0.206 0.204 0.2137 0.249 0.2536 RANDOM 40.886
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] 0.37 0.19 0.37 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.113 r_dihedral_angle_3_deg 12.476 r_dihedral_angle_4_deg 10.942 r_scangle_it 5.146 r_scbond_it 4.424 r_dihedral_angle_1_deg 4.246 r_mcangle_it 2.034 r_mcbond_it 1.549 r_angle_refined_deg 1.548 r_angle_other_deg 0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.113 r_dihedral_angle_3_deg 12.476 r_dihedral_angle_4_deg 10.942 r_scangle_it 5.146 r_scbond_it 4.424 r_dihedral_angle_1_deg 4.246 r_mcangle_it 2.034 r_mcbond_it 1.549 r_angle_refined_deg 1.548 r_angle_other_deg 0.89 r_symmetry_hbond_refined 0.256 r_mcbond_other 0.231 r_nbd_refined 0.228 r_symmetry_vdw_other 0.216 r_xyhbond_nbd_refined 0.206 r_nbd_other 0.196 r_nbtor_refined 0.187 r_symmetry_vdw_refined 0.17 r_nbtor_other 0.094 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_bond_other_d 0.004 r_gen_planes_refined 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1156 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing