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Crystal structure of alanine dehydrogenase (AF1665) from Archaeoglobus fulgidus at 2.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 293 0.05M Acetic Acid, 0.052M Citrate_Na3, 29% PEG MME 550 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K 2 VAPOR DIFFUSION,SITTING DROP,NANODROP 293 0.05M Acetic Acid, 0.05M Citrate_Na3, 30% PEG MME 550 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.38 48.22 2.7 54.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.702 α = 90 b = 92.437 β = 90 c = 131.783 γ = 90
Symmetry Space Group P 21 21 21
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 2004-02-04 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC 2003-09-20 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1 2 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9794, 0.9796, 1.0000 ALS 8.2.1
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 2.8 56.7 99.9 0.057 14.8 3.7 17713 84.89
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 2.8 2.87 99.8 0.362 2.3 3.3 1280
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.8 52.09 16757 897 99.79 0.21926 0.21742 0.2161 0.2539 0.2562 RANDOM 49.558
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] -1.6 -1.47 3.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.526 r_dihedral_angle_3_deg 17.346 r_dihedral_angle_4_deg 16.672 r_scangle_it 6.284 r_dihedral_angle_1_deg 5.836 r_scbond_it 4.204 r_mcangle_it 2.049 r_angle_refined_deg 1.312 r_mcbond_it 1.184 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.526 r_dihedral_angle_3_deg 17.346 r_dihedral_angle_4_deg 16.672 r_scangle_it 6.284 r_dihedral_angle_1_deg 5.836 r_scbond_it 4.204 r_mcangle_it 2.049 r_angle_refined_deg 1.312 r_mcbond_it 1.184 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.24 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.173 r_xyhbond_nbd_refined 0.153 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4574 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SOLVE phasing RESOLVE model building REFMAC refinement CCP4 data scaling RESOLVE phasing