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Crystal Structure of a Hypothetical ADP-dependent Phosphofructokinase from Pyrococcus horikoshii OT3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 22% PEG4000, 0.1M Tris-HCl, 0.2M LiSO4, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.56 51.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.065 α = 90 b = 99.932 β = 110.38 c = 82.581 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 SBC-3 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.96396, 0.97918, 0.97943 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2 50 99.2 0.08 0.057 21 6.6 69682 69682
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 98.6 0.445 0.343 3.57 5.9 6913
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 (All) 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 MAD THROUGHOUT 2 39.84 65970 65970 3508 98.73 0.199 0.17678 0.17418 0.1801 0.22592 0.2291 RANDOM 27.65
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] -0.04 -0.01 0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.599 r_scangle_it 6.443 r_scbond_it 3.978 r_mcangle_it 2.459 r_angle_refined_deg 1.985 r_mcbond_it 1.377 r_angle_other_deg 0.977 r_symmetry_vdw_refined 0.338 r_symmetry_vdw_other 0.288 r_nbd_other 0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.599 r_scangle_it 6.443 r_scbond_it 3.978 r_mcangle_it 2.459 r_angle_refined_deg 1.985 r_mcbond_it 1.377 r_angle_other_deg 0.977 r_symmetry_vdw_refined 0.338 r_symmetry_vdw_other 0.288 r_nbd_other 0.254 r_xyhbond_nbd_refined 0.235 r_nbd_refined 0.233 r_symmetry_hbond_refined 0.228 r_chiral_restr 0.128 r_nbtor_other 0.091 r_bond_refined_d 0.027 r_gen_planes_refined 0.01 r_gen_planes_other 0.006 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7316 Nucleic Acid Atoms Solvent Atoms 812 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SHELX phasing SHARP phasing