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Crystal structure of a NAD kinase from Archaeoglobus fulgidus bound by NADP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7.5 298 0.1M HEPES, 2M ammonium sulfate, pH 7.5, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.34 45.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.961 α = 90 b = 76.384 β = 90 c = 120 γ = 90
Symmetry Space Group P 21 21 2
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 315 2004-12-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0000 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 20 97.8 46313 45295
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.93 87.1
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 MOLECULAR REPLACEMENT THROUGHOUT 2 20 37433 34016 1802 90.87 0.21431 0.21431 0.21164 0.2052 0.26357 0.2478 RANDOM 21.671
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] 3.75 -2.77 -0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.875 r_scangle_it 3.289 r_scbond_it 2.014 r_angle_refined_deg 1.523 r_mcangle_it 1.265 r_angle_other_deg 0.82 r_mcbond_it 0.706 r_nbd_other 0.238 r_symmetry_vdw_other 0.234 r_symmetry_hbond_refined 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.875 r_scangle_it 3.289 r_scbond_it 2.014 r_angle_refined_deg 1.523 r_mcangle_it 1.265 r_angle_other_deg 0.82 r_mcbond_it 0.706 r_nbd_other 0.238 r_symmetry_vdw_other 0.234 r_symmetry_hbond_refined 0.22 r_xyhbond_nbd_refined 0.218 r_symmetry_vdw_refined 0.2 r_nbd_refined 0.199 r_chiral_restr 0.095 r_nbtor_other 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined 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 r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3926 Nucleic Acid Atoms Solvent Atoms 262 Heterogen Atoms 111
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing