☰ Navigation Tabs
Family 4 carbohydrate esterase from Streptomyces lividans in complex with acetate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C71 PDB ENTRY 2C71
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 7-13% PEG 4K, 0.2 M KBR, 0.1 M NAAC, PH 4.5. PROTEIN 20 MG/ML.
Crystal Properties Matthews coefficient Solvent content 2.05 39.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.538 α = 90 b = 47.905 β = 90 c = 89.842 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 CCD TOROIDAL MIRROR M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.6 40 98 0.05 17 3.4 51014
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 1.6 1.66 91 0.26 4 2.8
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 2C71 1.6 65.65 51014 2734 98.1 0.152 0.15 0.1495 0.188 0.1864 RANDOM 16.32
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] -0.46 0.11 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.422 r_dihedral_angle_4_deg 17.809 r_dihedral_angle_3_deg 12.414 r_dihedral_angle_1_deg 11.255 r_sphericity_free 5.219 r_sphericity_bonded 4.223 r_scangle_it 3.682 r_scbond_it 2.581 r_mcangle_it 1.785 r_rigid_bond_restr 1.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.422 r_dihedral_angle_4_deg 17.809 r_dihedral_angle_3_deg 12.414 r_dihedral_angle_1_deg 11.255 r_sphericity_free 5.219 r_sphericity_bonded 4.223 r_scangle_it 3.682 r_scbond_it 2.581 r_mcangle_it 1.785 r_rigid_bond_restr 1.471 r_angle_refined_deg 1.447 r_mcbond_it 1.203 r_nbtor_refined 0.303 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.184 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.099 r_bond_refined_d 0.013 r_metal_ion_refined 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2857 Nucleic Acid Atoms Solvent Atoms 564 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing