☰ Navigation Tabs
Crystal structure of NADH pyrophosphatase (1790429) from Escherichia coli k12 at 2.20 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 277 12% MPD, 0.08M HEPES, 0.02M HEPES_Na , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.13 69.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.319 α = 90 b = 127.319 β = 90 c = 108.405 γ = 120
Symmetry Space Group P 65 2 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 2003-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 63.66 100 0.068 13.9 7.4 26842 53.64
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.32 100 0.588 2.3 4.7 3836
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.2 63.66 25436 1371 99.87 0.18831 0.18668 0.21955 0.276 RANDOM 68.881
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] 1.85 0.92 1.85 -2.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.71 r_dihedral_angle_4_deg 15.135 r_dihedral_angle_3_deg 14.851 r_scangle_it 7.928 r_scbond_it 6.251 r_dihedral_angle_1_deg 5.824 r_mcangle_it 3.466 r_mcbond_it 2.452 r_angle_refined_deg 1.509 r_symmetry_vdw_refined 0.201
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.71 r_dihedral_angle_4_deg 15.135 r_dihedral_angle_3_deg 14.851 r_scangle_it 7.928 r_scbond_it 6.251 r_dihedral_angle_1_deg 5.824 r_mcangle_it 3.466 r_mcbond_it 2.452 r_angle_refined_deg 1.509 r_symmetry_vdw_refined 0.201 r_nbd_refined 0.195 r_symmetry_hbond_refined 0.178 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.102 r_bond_refined_d 0.017 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2053 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement SCALA data scaling CNS refinement MOSFLM data reduction CCP4 data scaling CNS phasing