☰ Navigation Tabs
5'-Nucleotidase (E. coli) with an Engineered Disulfide Bridge (S228C, P513C)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HP1 PDB ENTRY 1HP1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 26% PEG 400, 100 MM CACODYLATE PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.7 54.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.496 α = 90 b = 93.708 β = 97.71 c = 82.901 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 IMAGE PLATE MARRESEARCH MIRRORS 2003-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571
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 2.1 20 98.4 0.055 11.3 2.78 194970
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 2.1 2.17 90.8 0.32 2.08 2.35
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1HP1 2.1 30 66489 3557 98.3 0.169 0.166 0.1929 0.215 0.186 RANDOM 36.56
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] 0.66 0.02 -1.47 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.129 r_scangle_it 5.566 r_scbond_it 3.576 r_mcangle_it 2.277 r_angle_refined_deg 2.17 r_mcbond_it 1.356 r_angle_other_deg 1.105 r_symmetry_hbond_refined 0.355 r_symmetry_vdw_other 0.277 r_nbd_other 0.258
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.129 r_scangle_it 5.566 r_scbond_it 3.576 r_mcangle_it 2.277 r_angle_refined_deg 2.17 r_mcbond_it 1.356 r_angle_other_deg 1.105 r_symmetry_hbond_refined 0.355 r_symmetry_vdw_other 0.277 r_nbd_other 0.258 r_symmetry_vdw_refined 0.248 r_nbd_refined 0.233 r_xyhbond_nbd_refined 0.232 r_chiral_restr 0.15 r_nbtor_other 0.092 r_bond_refined_d 0.029 r_gen_planes_other 0.018 r_gen_planes_refined 0.014 r_bond_other_d 0.003 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8173 Nucleic Acid Atoms Solvent Atoms 746 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing MOLREP phasing REFMAC refinement