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Crystal structure of an uncharacterized sugar kinase PH1459 from pyrococcus horikoshii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 291 18% PEG 8000; 0.2M calcium acetate; 0.1M sodium cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.07 40.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.757 α = 90 b = 79.373 β = 94.18 c = 82.99 γ = 90
Symmetry Space Group P 1 21 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 210 mirrors 2008-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C 0.9795 NSLS X12C
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 1.9 57.26 99.2 0.145 12 7.2 44270 44270
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) 1.9 2 95.3 0.307 3.9 6 6148
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 1.9 57.26 44270 42006 2262 99.1 0.19217 0.18969 0.1889 0.23906 0.24 RANDOM 19.528
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] 0.21 -0.26 0.24 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.272 r_dihedral_angle_4_deg 21.743 r_dihedral_angle_3_deg 15.807 r_dihedral_angle_1_deg 5.605 r_scangle_it 3.439 r_scbond_it 2.203 r_mcangle_it 1.353 r_angle_refined_deg 1.3 r_mcbond_it 0.905 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.272 r_dihedral_angle_4_deg 21.743 r_dihedral_angle_3_deg 15.807 r_dihedral_angle_1_deg 5.605 r_scangle_it 3.439 r_scbond_it 2.203 r_mcangle_it 1.353 r_angle_refined_deg 1.3 r_mcbond_it 0.905 r_nbtor_refined 0.309 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.194 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4584 Nucleic Acid Atoms Solvent Atoms 441 Heterogen Atoms
Software Software Software Name Purpose CBASS data collection SHELX model building REFMAC refinement MOSFLM data reduction SCALA data scaling SHELX phasing