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Crystal structure of E. coli HypE, a hydrogenase maturation protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 294 1.28 M NaK phosphate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.33 63.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 254.757 α = 90 b = 71.776 β = 115.12 c = 113.034 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 ADSC QUANTUM 4 silicon 2005-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.10000 NSLS X8C
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 2.5 50 99.3 0.071 12.4 3.7 63144 63144
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 2.5 2.59 95.5 0.303 2.9 6014
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 2.51 43.73 63142 63142 3190 99.09 0.193 0.193 0.1893 0.24 0.2331 RANDOM 40.89
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] 0.06 0.07 -0.11 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.555 r_dihedral_angle_4_deg 20.383 r_dihedral_angle_3_deg 19.274 r_dihedral_angle_1_deg 5.848 r_scangle_it 2.587 r_scbond_it 1.52 r_angle_refined_deg 1.328 r_mcangle_it 0.919 r_mcbond_it 0.52 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.555 r_dihedral_angle_4_deg 20.383 r_dihedral_angle_3_deg 19.274 r_dihedral_angle_1_deg 5.848 r_scangle_it 2.587 r_scbond_it 1.52 r_angle_refined_deg 1.328 r_mcangle_it 0.919 r_mcbond_it 0.52 r_nbtor_refined 0.3 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.165 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9367 Nucleic Acid Atoms Solvent Atoms 397 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELX phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction SHELXD phasing