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Crystal structure of conserved uncharacterized protein PH0987 from Pyrococcus horikoshii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 289 USING 1.0 MICROLITER DROPS CONTAINING EQUAL VOLUMES OF PROTEIN CONCENTRATE (10.23 mg/mL) IN 20mM Tris-HCl pH 8.0, 1mM DTT, AND SOLUTION CONTAINING 17.5% w/v PEG 3350, 0.2 M Na Iodide, VAPOR DIFFUSION, temperature 289K
Crystal Properties Matthews coefficient Solvent content 3.31 62.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.848 α = 90 b = 105.848 β = 90 c = 51.869 γ = 120
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 ROSENBAUM 2007-01-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.97243 APS 22-ID
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 2.29 50 100 0.057 28.1 15 15078
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 2.29 2.38 100 0.322 13.8 1499
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.29 18.33 15018 761 99.97 0.242 0.239 0.294 0.2739 RANDOM 33.324
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 0.03 0.06 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.365 r_dihedral_angle_1_deg 22.808 r_dihedral_angle_3_deg 17.98 r_dihedral_angle_4_deg 15.381 r_scangle_it 5.551 r_scbond_it 4.092 r_angle_refined_deg 2.581 r_mcangle_it 2.343 r_mcbond_it 2.102 r_nbtor_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.365 r_dihedral_angle_1_deg 22.808 r_dihedral_angle_3_deg 17.98 r_dihedral_angle_4_deg 15.381 r_scangle_it 5.551 r_scbond_it 4.092 r_angle_refined_deg 2.581 r_mcangle_it 2.343 r_mcbond_it 2.102 r_nbtor_refined 0.328 r_xyhbond_nbd_refined 0.306 r_symmetry_hbond_refined 0.296 r_nbd_refined 0.245 r_chiral_restr 0.232 r_symmetry_vdw_refined 0.226 r_bond_refined_d 0.03 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1690 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing REFMAC refinement PDB_EXTRACT data extraction SERGUI data collection HKL-2000 data reduction