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Hydrogenase expression protein HupH from Thiobacillus denitrificans ATCC 25259
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 293 15% PEG6000, 5% Glycerol, pH 8.3, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.6 17.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.306 α = 90 b = 39.291 β = 104.74 c = 65.192 γ = 90
Symmetry Space Group C 1 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 300 mm CCD MIRROR 2010-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.06885 APS 21-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 1.67 50 99.3 0.048 62.7 7.2 23758 23758 -3 29.9
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 1.67 1.7 100 0.17 13.6 7.4 1211
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 (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 1.67 50 22523 22523 1214 99.06 0.16865 0.16704 0.1762 0.19863 0.1982 RANDOM 19.344
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] -0.35 -0.13 1.18 -0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.11 r_dihedral_angle_4_deg 10.717 r_dihedral_angle_3_deg 9.31 r_scangle_it 6.912 r_scbond_it 4.302 r_dihedral_angle_1_deg 3.555 r_mcangle_it 2.79 r_angle_refined_deg 1.693 r_mcbond_it 1.586 r_angle_other_deg 0.923
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.11 r_dihedral_angle_4_deg 10.717 r_dihedral_angle_3_deg 9.31 r_scangle_it 6.912 r_scbond_it 4.302 r_dihedral_angle_1_deg 3.555 r_mcangle_it 2.79 r_angle_refined_deg 1.693 r_mcbond_it 1.586 r_angle_other_deg 0.923 r_mcbond_other 0.538 r_chiral_restr 0.099 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1782 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 16
Software Software Software Name Purpose Blu-Ice data collection HKL-3000 phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling