☰ Navigation Tabs
Crystal structure of PanE/ApbA family ketopantoate reductase (YP_299159.1) from Ralstonia eutropha JMP134 at 2.15 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.71 277 26.2000% polyethylene glycol 6000, 0.1M Bicine pH 8.71, Additive: 0.001 M dihydro-nicotinamide-adenine-dinucleotide phosphate (NADPH), VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.21 α = 90 b = 116.21 β = 90 c = 95.604 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 325 mm CCD Flat mirror, vertical and horizontal focussing mirrors 2009-01-28 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-01-09 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.91837 SSRL BL12-2 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97927,0.91162,0.97912 SSRL BL9-2
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 2.15 29.761 99.9 0.111 0.111 4.124 3.7 39885 34.533
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 2.15 2.21 100 0.719 0.719 1 3.8 2923
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 2.15 29.761 39845 2003 99.84 0.186 0.183 0.1841 0.226 0.2273 RANDOM 49.293
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] -1.4 -0.7 -1.4 2.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.557 r_dihedral_angle_4_deg 14.898 r_dihedral_angle_3_deg 12.184 r_scangle_it 6.855 r_scbond_it 5.117 r_dihedral_angle_1_deg 3.328 r_mcangle_it 2.689 r_mcbond_it 1.918 r_angle_refined_deg 1.781 r_angle_other_deg 1.285
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.557 r_dihedral_angle_4_deg 14.898 r_dihedral_angle_3_deg 12.184 r_scangle_it 6.855 r_scbond_it 5.117 r_dihedral_angle_1_deg 3.328 r_mcangle_it 2.689 r_mcbond_it 1.918 r_angle_refined_deg 1.781 r_angle_other_deg 1.285 r_mcbond_other 0.487 r_symmetry_vdw_other 0.279 r_xyhbond_nbd_other 0.252 r_nbd_refined 0.194 r_symmetry_hbond_refined 0.19 r_xyhbond_nbd_refined 0.189 r_nbd_other 0.177 r_nbtor_refined 0.164 r_symmetry_vdw_refined 0.156 r_chiral_restr 0.09 r_nbtor_other 0.087 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4361 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 134
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction XDS data reduction XSCALE data scaling SHELXD phasing autoSHARP phasing