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X-RAY structure of the [FeFe]-hydrogenase maturase HydE from thermotoga maritima
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG4000 35%, 100mM TrisHCl, pH8.5, 100mM LiSO4, 3mM CHAPS, 20mg/mL Protein, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.17 43.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.974 α = 90 b = 79.228 β = 90 c = 85.941 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 ADSC QUANTUM 4 2006-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 43.85 98.5 0.045 16.21 3.6 77755 2 12
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.35 1.45 95.8 0.396 2.95 3.1 28542
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 SAD THROUGHOUT 1.35 38.36 72284 3837 98.75 0.14504 0.14335 0.1518 0.17713 0.1835 RANDOM 12.922
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] 0.75 -0.17 -0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.266 r_dihedral_angle_1_deg 16.91 r_dihedral_angle_4_deg 14.616 r_dihedral_angle_3_deg 11.865 r_sphericity_free 6.599 r_sphericity_bonded 3.587 r_scangle_it 2.709 r_mcangle_it 2.436 r_scbond_it 2.025 r_mcbond_it 1.846
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.266 r_dihedral_angle_1_deg 16.91 r_dihedral_angle_4_deg 14.616 r_dihedral_angle_3_deg 11.865 r_sphericity_free 6.599 r_sphericity_bonded 3.587 r_scangle_it 2.709 r_mcangle_it 2.436 r_scbond_it 2.025 r_mcbond_it 1.846 r_angle_refined_deg 1.622 r_rigid_bond_restr 1.569 r_angle_other_deg 1.205 r_mcbond_other 1.01 r_symmetry_vdw_other 0.262 r_nbd_refined 0.232 r_nbd_other 0.206 r_symmetry_vdw_refined 0.206 r_xyhbond_nbd_refined 0.198 r_nbtor_refined 0.18 r_symmetry_hbond_refined 0.16 r_chiral_restr 0.109 r_nbtor_other 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2831 Nucleic Acid Atoms Solvent Atoms 426 Heterogen Atoms 192
Software Software Software Name Purpose REFMAC refinement ADSC data collection XDS data reduction XSCALE data scaling SHARP phasing